Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_File	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	COSMIC_Codon	COSMIC_Gene	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	TTotCov	TVarCov	NTotCov	NVarCov	dbSNPPopFreq	COSMIC_Gene_Freq	COSMIC_Site_Freq	dbSNP_AF	Algorithm
NPHP4	261734	hgsc.bcm.edu	hg19	1	6046337	6046337	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NPHP4	NM_015102	exon2	c.C13T	p.H5Y	TCCTGTGCCAGTC	.	110.0	5.0	115.0	0.0	.	119	.	.	Atlas-SNP
SPEN	23013	hgsc.bcm.edu	hg19	1	16260282	16260282	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	SPEN,NS,carcinoma,0,1	SPEN	NM_015001	exon11	c.C7547T	p.P2516L	CATCTCCAGCTCT	.	35.0	2.0	34.0	0.0	.	374	.	.	Atlas-SNP
CLCNKA	1187	hgsc.bcm.edu	hg19	1	16353907	16353907	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLCNKA	NM_004070	exon8	c.T758C	p.L253P	GGCTCCTGGCAGT	.	106.0	5.0	101.0	0.0	.	56	.	.	Atlas-SNP
KLHDC7A	127707	hgsc.bcm.edu	hg19	1	18808294	18808294	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLHDC7A	NM_152375	exon1	c.T819A	p.H273Q	GGAGCATTTCATA	.	97.0	5.0	69.0	0.0	.	60	.	.	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	hg19	1	22207984	22207984	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HSPG2	NM_005529	exon14	c.A1666G	p.T556A	GCATTGTCACATT	.	82.0	4.0	93.0	0.0	.	311	.	.	Atlas-SNP
MYOM3	127294	hgsc.bcm.edu	hg19	1	24390564	24390564	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYOM3	NM_152372	exon30	c.A3620G	p.D1207G	CTACCGTCACCCG	.	87.0	4.0	88.0	0.0	.	131	.	.	Atlas-SNP
AHDC1	27245	hgsc.bcm.edu	hg19	1	27876868	27876868	+	Silent	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	AHDC1,NS,carcinoma,0,1	AHDC1	NM_001029882	exon6	c.C1759A	p.R587R	GCCGTCGTTTTTT	.	257.0	33.0	236.0	0.0	.	98	.	.	Atlas-SNP
PHACTR4	65979	hgsc.bcm.edu	hg19	1	28793167	28793167	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PHACTR4	NM_023923	exon5	c.T741C	p.A247A	TGCTGCTCCTGCC	.	114.0	5.0	116.0	0.0	.	64	.	.	Atlas-SNP
TXLNA	200081	hgsc.bcm.edu	hg19	1	32660695	32660695	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TXLNA	NM_175852	exon11	c.A1540G	p.S514G	GCACCCAGCTCCC	.	185.0	9.0	192.0	0.0	.	34	.	.	Atlas-SNP
RRAGC	64121	hgsc.bcm.edu	hg19	1	39318159	39318159	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RRAGC	NM_022157	exon4	c.T643C	p.F215L	GATAAAAGCTGAA	.	109.0	5.0	92.0	0.0	.	28	.	.	Atlas-SNP
MAST2	23139	hgsc.bcm.edu	hg19	1	46487680	46487680	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAST2	NM_015112	exon12	c.A1349G	p.E450G	CCAAAGAGGGACA	.	103.0	5.0	113.0	0.0	.	136	.	.	Atlas-SNP
SSBP3	23648	hgsc.bcm.edu	hg19	1	54870545	54870545	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SSBP3	NM_145716	exon2	c.A115G	p.T39A	AGAAGGTCTGTGC	.	120.0	5.0	89.0	0.0	.	65	.	.	Atlas-SNP
C1orf168	199920	hgsc.bcm.edu	hg19	1	57216837	57216837	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C1orf168	NM_001004303	exon9	c.A1267G	p.T423A	CGTTGGTCATCTG	.	85.0	4.0	112.0	0.0	.	102	.	.	Atlas-SNP
INADL	10207	hgsc.bcm.edu	hg19	1	62483532	62483532	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	INADL	NM_176877	exon29	c.A3872G	p.N1291S	AGATAAACAATCA	.	74.0	4.0	82.0	0.0	.	179	.	.	Atlas-SNP
KANK4	163782	hgsc.bcm.edu	hg19	1	62739460	62739460	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KANK4	NM_181712	exon3	c.G1316C	p.S439T	TCCATGCTGCCTA	.	199.0	47.0	121.0	0.0	.	135	.	.	Atlas-SNP
SLC35D1	23169	hgsc.bcm.edu	hg19	1	67512956	67512956	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC35D1	NM_015139	exon7	c.G628A	p.D210N	TTGAATCTAATTT	.	54.0	4.0	54.0	0.0	.	22	.	.	Atlas-SNP
LRRC7	57554	hgsc.bcm.edu	hg19	1	70397188	70397188	+	Splice_Site	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LRRC7	NM_020794	exon6	c.534-2A>G	.	TGTTGTAGGTCAA	.	119.0	5.0	85.0	0.0	.	400	.	.	Atlas-SNP
FUBP1	8880	hgsc.bcm.edu	hg19	1	78432435	78432435	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FUBP1	NM_003902	exon7	c.A416G	p.D139G	CCACTGTCTACAA	.	87.0	4.0	69.0	0.0	.	112	.	.	Atlas-SNP
BCL10	8915	hgsc.bcm.edu	hg19	1	85733444	85733444	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BCL10	NM_003921	exon3	c.A568G	p.T190A	GTGTAGTTGAAGA	.	77.0	15.0	74.0	0.0	.	39	.	.	Atlas-SNP
CLCA1	1179	hgsc.bcm.edu	hg19	1	86957056	86957056	+	Splice_Site	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLCA1	NM_001285	exon9	c.1464+2T>C	.	TCCAGGTTGGAGT	.	108.0	5.0	82.0	0.0	.	109	.	.	Atlas-SNP
PKN2	5586	hgsc.bcm.edu	hg19	1	89236054	89236054	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PKN2	NM_006256	exon4	c.C524A	p.T175K	ATGGTACAGCTCA	.	141.0	34.0	132.0	0.0	.	109	.	.	Atlas-SNP
DNTTIP2	30836	hgsc.bcm.edu	hg19	1	94341253	94341253	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNTTIP2	NM_014597	exon3	c.T1754C	p.L585P	GACTGTAGTTTAT	.	81.0	4.0	41.0	0.0	.	59	.	.	Atlas-SNP
SASS6	163786	hgsc.bcm.edu	hg19	1	100587007	100587007	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SASS6	NM_194292	exon5	c.T410C	p.L137P	AGTGAGAGGTGTG	.	124.0	5.0	87.0	0.0	.	61	.	.	Atlas-SNP
COL11A1	1301	hgsc.bcm.edu	hg19	1	103453237	103453237	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	COL11A1_ENST00000370096,NS,carcinoma,0,2	COL11A1	NM_080629	exon30	c.A2490G	p.R830R	GCCTGCTCGACCT	.	71.0	4.0	52.0	0.0	.	972	.	.	Atlas-SNP
VAV3	10451	hgsc.bcm.edu	hg19	1	108226149	108226149	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	VAV3	NM_006113	exon19	c.A1738G	p.T580A	CATTGGTCCGTTT	.	130.0	7.0	108.0	0.0	.	176	.	.	Atlas-SNP
OVGP1	5016	hgsc.bcm.edu	hg19	1	111957947	111957947	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OVGP1	NM_002557	exon11	c.A1176G	p.L392L	TTGTGGTAAAGAA	.	95.0	29.0	84.0	0.0	.	177	.	.	Atlas-SNP
PHTF1	10745	hgsc.bcm.edu	hg19	1	114252943	114252943	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PHTF1	NM_006608	exon10	c.A1202G	p.E401G	GCCCCCTCACTGT	.	136.0	6.0	144.0	0.0	.	69	.	.	Atlas-SNP
ATP1A4	480	hgsc.bcm.edu	hg19	1	160136351	160136351	+	Silent	SNP	C	C	A	rs143083729	bycluster;byfrequency;alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	ATP1A4,NS,carcinoma,0,1	ATP1A4	NM_144699	exon8	c.C1081A	p.R361R	ATGGCGCGGAAGA	.	393.0	0.0	152.0	0.0	.	167	.	C|0.999;T|0.001	Atlas-SNP
KLHDC9	126823	hgsc.bcm.edu	hg19	1	161068653	161068653	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLHDC9	NM_001007255	exon1	c.C328T	p.L110L	ACCGCACTGGACA	.	97.0	5.0	43.0	0.0	.	16	.	.	Atlas-SNP
C1orf226	400793	hgsc.bcm.edu	hg19	1	162351912	162351912	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C1orf226	NM_001135240	exon2	c.T350C	p.L117P	CCAGCCTGGGCAG	.	121.0	5.0	61.0	0.0	.	49	.	.	Atlas-SNP
ADCY10	55811	hgsc.bcm.edu	hg19	1	167874253	167874253	+	Silent	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADCY10	NM_018417	exon2	c.C126G	p.V42V	CATCAGGACTCCG	.	372.0	84.0	167.0	0.0	.	175	.	.	Atlas-SNP
TNN	63923	hgsc.bcm.edu	hg19	1	175113579	175113579	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	TNN,NS,carcinoma,0,1	TNN	NM_022093	exon18	c.G3652C	p.D1218H	GACAATGATATCG	.	217.0	0.0	155.0	0.0	.	297	.	.	Atlas-SNP
HMCN1	83872	hgsc.bcm.edu	hg19	1	186086675	186086675	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HMCN1	NM_031935	exon77	c.T11768C	p.V3923A	CGGGAGTTCCATT	.	145.0	6.0	73.0	0.0	.	797	.	.	Atlas-SNP
PPP1R12B	4660	hgsc.bcm.edu	hg19	1	202394814	202394814	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPP1R12B	NM_002481	exon4	c.T662C	p.L221P	CAGCCCTTCATGT	.	174.0	7.0	65.0	0.0	.	100	.	.	Atlas-SNP
PARP1	142	hgsc.bcm.edu	hg19	1	226570841	226570841	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	PARP1,NS,carcinoma,0,1	PARP1	NM_001618	exon8	c.A1055G	p.K352R	TCCTGTTTTTTAA	.	148.0	0.0	78.0	0.0	.	100	.	.	Atlas-SNP
WNT3A	89780	hgsc.bcm.edu	hg19	1	228238561	228238561	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WNT3A	NM_033131	exon3	c.G518A	p.R173Q	ACGCCCGGGAGAA	.	237.0	47.0	123.0	0.0	.	40	.	.	Atlas-SNP
SIPA1L2	57568	hgsc.bcm.edu	hg19	1	232568017	232568017	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SIPA1L2	NM_020808	exon14	c.A4232G	p.E1411G	TCAGGCTCCTCGG	.	180.0	8.0	105.0	0.0	.	218	.	.	Atlas-SNP
OR2C3	81472	hgsc.bcm.edu	hg19	1	247695757	247695757	+	Silent	SNP	G	G	C	rs61746303	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	OR2C3,NS,carcinoma,0,2	OR2C3	NM_198074	exon2	c.C57G	p.S19S	TCGTGTGGAGAAG	.	195.0	0.0	108.0	0.0	.	92	.	G|0.996;A|0.004	Atlas-SNP
TAF1B	9014	hgsc.bcm.edu	hg19	2	10045015	10045015	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	TAF1B,NS,carcinoma,0,1	TAF1B	NM_005680	exon9	c.A835T	p.K279X	ATCTACAAAAAAA	.	72.0	0.0	29.0	0.0	.	62	.	.	Atlas-SNP
WDR35	57539	hgsc.bcm.edu	hg19	2	20162082	20162082	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WDR35	NM_001006657	exon11	c.A1201G	p.N401D	TCTCGTTCTCCTC	.	67.0	4.0	26.0	0.0	.	92	.	.	Atlas-SNP
ITSN2	50618	hgsc.bcm.edu	hg19	2	24469141	24469141	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ITSN2	NM_147152	exon29	c.A3434G	p.E1145G	CTGAGCTCATCTT	.	120.0	5.0	82.0	0.0	.	224	.	.	Atlas-SNP
HADHB	3032	hgsc.bcm.edu	hg19	2	26505888	26505888	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HADHB	NM_000183	exon12	c.T1030C	p.S344P	TATGTGTCTCAGG	.	129.0	6.0	87.0	0.0	.	50	.	.	Atlas-SNP
PLB1	151056	hgsc.bcm.edu	hg19	2	28788183	28788183	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PLB1	NM_001170585	exon19	c.T1276C	p.L426L	AACGTCTTGGACG	.	99.0	4.0	86.0	0.0	.	255	.	.	Atlas-SNP
SPDYA	245711	hgsc.bcm.edu	hg19	2	29041943	29041943	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SPDYA	NM_001142634	exon3	c.A265G	p.M89V	TTGTGGATGGACT	.	95.0	4.0	62.0	0.0	.	41	.	.	Atlas-SNP
BIRC6	57448	hgsc.bcm.edu	hg19	2	32733177	32733177	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BIRC6	NM_016252	exon51	c.T9831C	p.A3277A	TTCTGCTGTCTGC	.	216.0	92.0	167.0	0.0	.	838	.	.	Atlas-SNP
LTBP1	4052	hgsc.bcm.edu	hg19	2	33413701	33413701	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LTBP1	NM_206943	exon7	c.T1484C	p.V495A	CTTCCGTCCAGAT	.	59.0	4.0	37.0	0.0	.	317	.	.	Atlas-SNP
NDUFAF7	55471	hgsc.bcm.edu	hg19	2	37475305	37475305	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_144736	exon10	c.T1138C	p.S380P	GAGCCATCAGTGA	.	125.0	5.0	80.0	0.0	.	.	.	.	Atlas-SNP
MSH2	4436	hgsc.bcm.edu	hg19	2	47639551	47639551	+	Splice_Site	SNP	A	A	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MSH2	NM_000251	exon4	c.646-2A>T	.	CAAAATAGATAAT	.	293.0	83.0	211.0	0.0	.	198	.	.	Atlas-SNP
EML6	400954	hgsc.bcm.edu	hg19	2	55040425	55040425	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EML6	NM_001039753	exon2	c.C254T	p.P85L	AGGAGCCATATAT	.	123.0	40.0	99.0	0.0	.	85	.	.	Atlas-SNP
EML6	400954	hgsc.bcm.edu	hg19	2	55179820	55179820	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EML6	NM_001039753	exon30	c.A4303G	p.S1435G	GCCACCAGCCAGA	.	89.0	4.0	80.0	0.0	.	85	.	.	Atlas-SNP
REL	5966	hgsc.bcm.edu	hg19	2	61149213	61149213	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	REL	NM_002908	exon11	c.A1403G	p.D468G	CCGATGACATAGT	.	100.0	4.0	90.0	0.0	.	48	.	.	Atlas-SNP
COMMD1	150684	hgsc.bcm.edu	hg19	2	62132979	62132979	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COMMD1	NM_152516	exon1	c.A166G	p.R56G	AAGATGAGGGGGA	.	85.0	5.0	81.0	0.0	.	17	.	.	Atlas-SNP
EHBP1	23301	hgsc.bcm.edu	hg19	2	62934345	62934345	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EHBP1	NM_001142616	exon2	c.A19G	p.R7G	TGGAAGAGACTGC	.	156.0	9.0	159.0	0.0	.	127	.	.	Atlas-SNP
DCTN1	1639	hgsc.bcm.edu	hg19	2	74597423	74597423	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DCTN1	NM_004082	exon12	c.A1177G	p.K393E	TGAGCTTCTGGAG	.	96.0	4.0	83.0	0.0	.	110	.	.	Atlas-SNP
REG1B	5968	hgsc.bcm.edu	hg19	2	79313509	79313509	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	REG1B	NM_006507	exon4	c.T305C	p.L102P	TCATGGAGGCCAA	.	142.0	7.0	117.0	0.0	.	83	.	.	Atlas-SNP
IMMT	10989	hgsc.bcm.edu	hg19	2	86393732	86393732	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IMMT	NM_006839	exon7	c.A691G	p.T231A	TTGCAGTTTGCCT	.	88.0	4.0	62.0	0.0	.	65	.	.	Atlas-SNP
TMEM131	23505	hgsc.bcm.edu	hg19	2	98460710	98460710	+	Silent	SNP	T	T	C	rs202141365	bycluster;by1000genomes;alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMEM131	NM_015348	exon6	c.A498G	p.G166G	ATTTCCTCCTGGA	.	146.0	6.0	92.0	0.0	.	258	.	T|1.000;G|0.000	Atlas-SNP
TSGA10	80705	hgsc.bcm.edu	hg19	2	99721887	99721887	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TSGA10	NM_182911	exon8	c.A394G	p.T132A	ATGCTGTCTCTTG	.	95.0	4.0	83.0	0.0	.	81	.	.	Atlas-SNP
RANBP2	5903	hgsc.bcm.edu	hg19	2	109379816	109379816	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RANBP2	NM_006267	exon20	c.C2821A	p.P941T	TATGGTCCTCCTG	.	247.0	11.0	174.0	0.0	.	488	.	.	Atlas-SNP
RANBP2	5903	hgsc.bcm.edu	hg19	2	109379840	109379840	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RANBP2	NM_006267	exon20	c.C2845G	p.P949A	GAGTCTCCTGCAA	.	223.0	10.0	140.0	0.0	.	488	.	.	Atlas-SNP
CCDC138	165055	hgsc.bcm.edu	hg19	2	109429147	109429147	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	CCDC138,caecum,carcinoma,0,1	CCDC138	NM_144978	exon8	c.C916A	p.R306S	CAAGCTCGTTTAG	.	162.0	0.0	110.0	0.0	.	49	.	.	Atlas-SNP
DPP10	57628	hgsc.bcm.edu	hg19	2	116447448	116447448	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DPP10	NM_001178034	exon7	c.A539G	p.E180G	AAGTAGAGGACTC	.	71.0	5.0	57.0	0.0	.	415	.	.	Atlas-SNP
WDR33	55339	hgsc.bcm.edu	hg19	2	128477145	128477145	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WDR33	NM_018383	exon16	c.A2454G	p.G818G	CAGTAGTCCACCT	.	110.0	5.0	69.0	0.0	.	136	.	.	Atlas-SNP
NEB	4703	hgsc.bcm.edu	hg19	2	152424933	152424933	+	Splice_Site	SNP	T	T	A	rs75873810	bycluster	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,3	NEB	NM_001164507	exon113	c.17635-2A>T	.	TTAATCTAAAAAA	.	70.0	5.0	59.0	2.0	.	1697	.	.	Atlas-SNP
XIRP2	129446	hgsc.bcm.edu	hg19	2	168101503	168101503	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	XIRP2	NM_152381	exon9	c.A3601G	p.R1201G	AGCATGAGGTATA	.	74.0	5.0	62.0	0.0	.	914	.	.	Atlas-SNP
RAPGEF4	11069	hgsc.bcm.edu	hg19	2	173882175	173882175	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RAPGEF4	NM_007023	exon21	c.T1951C	p.F651L	CAACAGTTCAATA	.	90.0	4.0	79.0	0.0	.	103	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179397453	179397453	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTN	NM_001267550	exon358	c.A103889G	p.E34630G	ACTATCTCAAGAT	.	104.0	5.0	61.0	0.0	.	18412	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179490077	179490077	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTN	NM_001267550	exon241	c.A44471G	p.D14824G	TTTACATCCCTCA	.	99.0	4.0	83.0	0.0	.	18412	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179501512	179501512	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTN	NM_001267550	exon225	c.A40942G	p.T13648A	AAGGAGTCTTTTT	.	125.0	5.0	72.0	0.0	.	18412	.	.	Atlas-SNP
CWC22	57703	hgsc.bcm.edu	hg19	2	180835748	180835748	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CWC22	NM_020943	exon9	c.A860G	p.D287G	CTATCATCTGTTG	.	107.0	5.0	75.0	0.0	.	62	.	.	Atlas-SNP
FAM171B	165215	hgsc.bcm.edu	hg19	2	187605011	187605011	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM171B	NM_177454	exon2	c.A295G	p.S99G	TACCTGAGCCAAG	.	201.0	11.0	121.0	0.0	.	146	.	.	Atlas-SNP
COL5A2	1290	hgsc.bcm.edu	hg19	2	189951464	189951464	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL5A2	NM_000393	exon9	c.A678G	p.L226L	TCCTTGTAAACCC	.	60.0	4.0	30.0	0.0	.	230	.	.	Atlas-SNP
HIBCH	26275	hgsc.bcm.edu	hg19	2	191159295	191159295	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HIBCH	NM_014362	exon4	c.T281C	p.F94S	GCACAGAAAGCCT	.	96.0	4.0	72.0	0.0	.	28	.	.	Atlas-SNP
ICA1L	130026	hgsc.bcm.edu	hg19	2	203650685	203650685	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ICA1L	NM_138468	exon13	c.A1289G	p.D430G	TGGTTATCAGTGT	.	55.0	5.0	39.0	0.0	.	33	.	.	Atlas-SNP
TTLL4	9654	hgsc.bcm.edu	hg19	2	219604821	219604821	+	Missense_Mutation	SNP	G	G	T	rs371385094	alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTLL4	NM_014640	exon4	c.G1528T	p.D510Y	ACTGAAGATACAG	.	231.0	25.0	185.0	0.0	.	96	.	.	Atlas-SNP
DNPEP	23549	hgsc.bcm.edu	hg19	2	220246820	220246820	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNPEP	NM_012100	exon11	c.A978G	p.T326T	CAGCTCTGTCAGC	.	85.0	4.0	38.0	0.0	.	40	.	.	Atlas-SNP
COL4A3	1285	hgsc.bcm.edu	hg19	2	228111436	228111436	+	Silent	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	COL4A3_ENST00000328380,NS,carcinoma,0,2	COL4A3	NM_000091	exon7	c.G423C	p.L141L	GACACTGGGCTAC	.	180.0	0.0	135.0	0.0	.	293	.	.	Atlas-SNP
LRRFIP1	9208	hgsc.bcm.edu	hg19	2	238681566	238681566	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	LRRFIP1_ENST00000308482,NS,carcinoma,0,1	LRRFIP1	NM_001137550	exon22	c.A1685G	p.E562G	AGCAAGAGATAAC	.	113.0	5.0	86.0	0.0	.	171	.	.	Atlas-SNP
NKTR	4820	hgsc.bcm.edu	hg19	3	42679487	42679487	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	NKTR,NS,carcinoma,0,1	NKTR	NM_005385	exon13	c.A2291G	p.K764R	GTGGGAAAAAAAA	.	133.0	0.0	88.0	0.0	.	116	.	.	Atlas-SNP
ZNF197	10168	hgsc.bcm.edu	hg19	3	44683956	44683956	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF197	NM_006991	exon6	c.A1334G	p.Q445R	ACCATCAGAGGAT	.	85.0	4.0	54.0	0.0	.	81	.	.	Atlas-SNP
LZTFL1	54585	hgsc.bcm.edu	hg19	3	45874602	45874602	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LZTFL1	NM_020347	exon5	c.T396C	p.D132D	TGTGACATCTAAG	.	68.0	4.0	79.0	0.0	.	37	.	.	Atlas-SNP
SETD2	29072	hgsc.bcm.edu	hg19	3	47164899	47164899	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SETD2	NM_014159	exon3	c.T1227C	p.S409S	TCTCTCAGACCTA	.	142.0	7.0	113.0	0.0	.	721	.	.	Atlas-SNP
GMPPB	29925	hgsc.bcm.edu	hg19	3	49759218	49759218	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GMPPB	NM_013334	exon8	c.C1131T	p.G377G	TGACTCGCCAATA	.	36.0	4.0	32.0	0.0	.	14	.	.	Atlas-SNP
CACNA2D2	9254	hgsc.bcm.edu	hg19	3	50417242	50417242	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CACNA2D2	NM_001174051	exon10	c.A907G	p.S303G	GGCCGCTCACACT	.	158.0	7.0	130.0	0.0	.	82	.	.	Atlas-SNP
GNL3	26354	hgsc.bcm.edu	hg19	3	52727059	52727059	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GNL3	NM_014366	exon10	c.A1041G	p.R347R	TGCTCGACAGGTA	.	98.0	4.0	64.0	0.0	.	37	.	.	Atlas-SNP
FLNB	2317	hgsc.bcm.edu	hg19	3	58087998	58087998	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FLNB	NM_001457	exon9	c.A1414G	p.T472A	CGGGAGACCACAG	.	123.0	5.0	121.0	0.0	.	430	.	.	Atlas-SNP
SUCLG2	8801	hgsc.bcm.edu	hg19	3	67660015	67660015	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SUCLG2	NM_001177599	exon2	c.T90C	p.V30V	TAATTGAACTGCC	.	76.0	4.0	66.0	0.0	.	95	.	.	Atlas-SNP
FRMD4B	23150	hgsc.bcm.edu	hg19	3	69239069	69239069	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FRMD4B	NM_015123	exon18	c.T1749C	p.S583S	GGTGTCAGACAAA	.	99.0	4.0	65.0	0.0	.	90	.	.	Atlas-SNP
TOMM70A	9868	hgsc.bcm.edu	hg19	3	100093979	100093979	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TOMM70A	NM_014820	exon7	c.C1110T	p.L370L	TTTGATGAGAGCA	.	54.0	19.0	58.0	0.0	.	65	.	.	Atlas-SNP
GPR156	165829	hgsc.bcm.edu	hg19	3	119887020	119887020	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR156	NM_153002	exon9	c.A1304G	p.D435G	CCAGGATCATTCT	.	146.0	6.0	119.0	0.0	.	85	.	.	Atlas-SNP
SLC15A2	6565	hgsc.bcm.edu	hg19	3	121613346	121613346	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC15A2	NM_001145998	exon1	c.A23G	p.E8G	AAAATGAGTCCAA	.	85.0	4.0	64.0	0.0	.	92	.	.	Atlas-SNP
C3orf22	152065	hgsc.bcm.edu	hg19	3	126270923	126270923	+	Silent	SNP	G	G	A	rs34760151	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C3orf22	NM_152533	exon3	c.C132T	p.P44P	CTCCCAGGGCTGC	.	113.0	31.0	93.0	0.0	.	17	.	G|0.912;C|0.088	Atlas-SNP
TXNRD3NB	645840	hgsc.bcm.edu	hg19	3	126291337	126291337	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TXNRD3NB	NM_001039783	exon3	c.A50G	p.E17G	TGCTGCTCAGCTT	.	121.0	5.0	80.0	0.0	.	13	.	.	Atlas-SNP
COL6A6	131873	hgsc.bcm.edu	hg19	3	130284285	130284285	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	COL6A6_ENST00000358511,right_upper_lobe,carcinoma,0,2	COL6A6	NM_001102608	exon3	c.C1109A	p.A370D	AGGGCGCCAGCGA	.	88.0	0.0	96.0	0.0	.	497	.	.	Atlas-SNP
PIK3R4	30849	hgsc.bcm.edu	hg19	3	130454770	130454770	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PIK3R4	NM_014602	exon3	c.A810G	p.G270G	AAAATGTCCATTT	.	64.0	4.0	58.0	0.0	.	145	.	.	Atlas-SNP
NPHP3	27031	hgsc.bcm.edu	hg19	3	132440946	132440946	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NPHP3	NM_153240	exon1	c.A254G	p.E85G	GCGTACTCCAGCT	.	61.0	6.0	55.0	0.0	.	110	.	.	Atlas-SNP
PPP2R3A	5523	hgsc.bcm.edu	hg19	3	135745883	135745883	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPP2R3A	NM_002718	exon3	c.T2205C	p.A735A	AACTGCTTTCATG	.	79.0	4.0	58.0	0.0	.	114	.	.	Atlas-SNP
GRK7	131890	hgsc.bcm.edu	hg19	3	141497152	141497152	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GRK7	NM_139209	exon1	c.A26G	p.N9S	TGGACAACCTGAT	.	121.0	5.0	87.0	0.0	.	65	.	.	Atlas-SNP
TM4SF18	116441	hgsc.bcm.edu	hg19	3	149051109	149051109	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TM4SF18	NM_001184723	exon1	c.A61G	p.S21G	TTATACTCCAAAG	.	137.0	6.0	104.0	0.0	.	12	.	.	Atlas-SNP
MED12L	116931	hgsc.bcm.edu	hg19	3	150874054	150874054	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MED12L	NM_053002	exon5	c.A663G	p.P221P	GCCACCAGAGGTG	.	97.0	5.0	82.0	0.0	.	271	.	.	Atlas-SNP
WDR49	151790	hgsc.bcm.edu	hg19	3	167254660	167254660	+	Missense_Mutation	SNP	G	G	A	rs200695837		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	WDR49,bladder,carcinoma,0,2	WDR49	NM_178824	exon7	c.C896T	p.T299M	TTACCCGTAACAA	.	75.0	19.0	81.0	0.0	.	188	.	G|0.999;A|0.001	Atlas-SNP
TNIK	23043	hgsc.bcm.edu	hg19	3	170805183	170805183	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNIK	NM_015028	exon24	c.A2834G	p.E945G	AGTCCCTCAGTCG	.	92.0	4.0	71.0	0.0	.	313	.	.	Atlas-SNP
MCF2L2	23101	hgsc.bcm.edu	hg19	3	182946091	182946091	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MCF2L2	NM_015078	exon18	c.C2109T	p.L703L	TCTCTTGAGAAAG	.	81.0	4.0	59.0	0.0	.	164	.	.	Atlas-SNP
GAK	2580	hgsc.bcm.edu	hg19	4	877197	877197	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GAK	NM_005255	exon13	c.A1310G	p.D437G	CGCACATCTTCGA	.	99.0	4.0	74.0	0.0	.	104	.	.	Atlas-SNP
HTT	3064	hgsc.bcm.edu	hg19	4	3241656	3241656	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HTT	NM_002111	exon67	c.G9299A	p.R3100K	TCTACAGACACCA	.	176.0	28.0	139.0	0.0	.	221	.	.	Atlas-SNP
HGFAC	3083	hgsc.bcm.edu	hg19	4	3443797	3443797	+	Silent	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	HGFAC,NS,carcinoma,0,2	HGFAC	NM_001528	exon1	c.C69G	p.L23L	CCTCCTCCTGCTG	.	26.0	2.0	16.0	0.0	.	69	.	.	Atlas-SNP
OTOP1	133060	hgsc.bcm.edu	hg19	4	4204211	4204211	+	Missense_Mutation	SNP	G	G	A	rs200612216		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	OTOP1,NS,carcinoma,0,3	OTOP1	NM_177998	exon4	c.C694T	p.R232W	TGAGCCGTTCCTT	.	141.0	6.0	119.0	0.0	.	118	.	.	Atlas-SNP
OTOP1	133060	hgsc.bcm.edu	hg19	4	4204302	4204302	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OTOP1	NM_177998	exon4	c.T603G	p.F201L	CACTCCAAACCTG	.	91.0	5.0	66.0	0.0	.	118	.	.	Atlas-SNP
FBXL5	26234	hgsc.bcm.edu	hg19	4	15627530	15627530	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FBXL5	NM_012161	exon9	c.G1195A	p.V399M	GGGCCACATCTGT	.	85.0	4.0	75.0	0.0	.	52	.	.	Atlas-SNP
KLB	152831	hgsc.bcm.edu	hg19	4	39436265	39436265	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLB	NM_175737	exon2	c.A1261G	p.T421A	TGGTTCACAGACA	.	91.0	4.0	77.0	0.0	.	95	.	.	Atlas-SNP
PHOX2B	8929	hgsc.bcm.edu	hg19	4	41750584	41750584	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PHOX2B	NM_003924	exon1	c.A44G	p.E15G	CAGGACTCGTAGG	.	99.0	4.0	86.0	0.0	.	53	.	.	Atlas-SNP
SCFD2	152579	hgsc.bcm.edu	hg19	4	54231690	54231690	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SCFD2	NM_152540	exon1	c.T419C	p.L140P	TCACACAGCTTCT	.	121.0	5.0	95.0	0.0	.	78	.	.	Atlas-SNP
EPHA5	2044	hgsc.bcm.edu	hg19	4	66467955	66467955	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EPHA5	NM_004439	exon3	c.T314C	p.M105T	TGTTCCATCACTT	.	32.0	4.0	41.0	0.0	.	315	.	.	Atlas-SNP
TMPRSS11BNL	401136	hgsc.bcm.edu	hg19	4	69057170	69057170	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMPRSS11BNL	NM_001129907	exon3	c.A197G	p.E66G	GATGTCTCCCTTT	.	70.0	4.0	70.0	0.0	.	4	.	.	Atlas-SNP
CSN2	1447	hgsc.bcm.edu	hg19	4	70824773	70824773	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CSN2	NM_001891	exon3	c.A93G	p.E31E	CTTGTATTCTGTA	.	41.0	4.0	32.0	0.0	.	30	.	.	Atlas-SNP
PF4	5196	hgsc.bcm.edu	hg19	4	74847216	74847216	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PF4	NM_002619	exon2	c.A136G	p.T46A	AGGTGGTCTTCAC	.	147.0	6.0	180.0	0.0	.	13	.	.	Atlas-SNP
CCNI	10983	hgsc.bcm.edu	hg19	4	77977228	77977228	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CCNI	NM_006835	exon5	c.A346G	p.R116G	TGTCTCTTGCCAA	.	73.0	4.0	59.0	0.0	.	22	.	.	Atlas-SNP
CDS1	1040	hgsc.bcm.edu	hg19	4	85555086	85555086	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDS1	NM_001263	exon7	c.T716C	p.M239T	AAGGCATGATATG	.	89.0	4.0	70.0	0.0	.	58	.	.	Atlas-SNP
SMARCAD1	56916	hgsc.bcm.edu	hg19	4	95129594	95129594	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SMARCAD1	NM_001128429	exon2	c.A49G	p.I17V	AATAAGATTGAGG	.	90.0	4.0	107.0	0.0	.	97	.	.	Atlas-SNP
BANK1	55024	hgsc.bcm.edu	hg19	4	102946503	102946503	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BANK1	NM_017935	exon9	c.T1431C	p.S477S	TGGCAGTGAGAGT	.	91.0	4.0	107.0	0.0	.	95	.	.	Atlas-SNP
ALPK1	80216	hgsc.bcm.edu	hg19	4	113333009	113333009	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ALPK1	NM_001102406	exon5	c.T303C	p.A101A	CCTCGCTCGGGAC	.	138.0	6.0	155.0	0.0	.	125	.	.	Atlas-SNP
ALPK1	80216	hgsc.bcm.edu	hg19	4	113356354	113356354	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ALPK1	NM_001102406	exon12	c.G3085A	p.E1029K	GCCCAGGAAACTA	.	120.0	20.0	130.0	0.0	.	125	.	.	Atlas-SNP
LARP7	51574	hgsc.bcm.edu	hg19	4	113565838	113565838	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LARP7	NM_001267039	exon4	c.A34G	p.S12G	ACTGAAAGTGGAA	.	45.0	4.0	47.0	0.0	.	54	.	.	Atlas-SNP
NDST3	9348	hgsc.bcm.edu	hg19	4	119035960	119035960	+	Splice_Site	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NDST3	NM_004784	exon4	c.1070-1G>A	.	CCTAAAGGAACTG	.	162.0	7.0	176.0	0.0	.	107	.	.	Atlas-SNP
SEC24D	9871	hgsc.bcm.edu	hg19	4	119736614	119736614	+	Missense_Mutation	SNP	G	G	T	rs138326987	bycluster;by1000genomes;alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	SEC24D,NS,carcinoma,0,1	SEC24D	NM_014822	exon5	c.C665A	p.P222Q	TGCTGCGGAGGAT	.	86.0	0.0	71.0	0.0	.	96	.	G|1.000;A|0.000	Atlas-SNP
CCNA2	890	hgsc.bcm.edu	hg19	4	122742218	122742218	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	CCNA2,colon,carcinoma,0,1	CCNA2	NM_001237	exon3	c.T486G	p.I162M	TAATATAATTGAC	.	156.0	0.0	149.0	0.0	.	30	.	.	Atlas-SNP
PCDH18	54510	hgsc.bcm.edu	hg19	4	138452456	138452456	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	PCDH18,NS,carcinoma,0,1	PCDH18	NM_019035	exon1	c.A787G	p.T263A	GCAAAGTGCCAAC	.	40.0	3.0	47.0	0.0	.	229	.	.	Atlas-SNP
TBC1D9	23158	hgsc.bcm.edu	hg19	4	141560268	141560268	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TBC1D9	NM_015130	exon15	c.A2477G	p.E826G	TCCAGCTCATCAA	.	91.0	5.0	90.0	0.0	.	198	.	.	Atlas-SNP
KLKB1	3818	hgsc.bcm.edu	hg19	4	187172371	187172371	+	Splice_Site	SNP	A	A	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLKB1	NM_000892	exon8	c.759-2A>T	.	AAAAATAGAAATG	.	62.0	4.0	44.0	0.0	.	155	.	.	Atlas-SNP
C5orf22	55322	hgsc.bcm.edu	hg19	5	31541441	31541441	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C5orf22	NM_018356	exon6	c.A924G	p.E308E	TTTAGAAGCCACT	.	86.0	4.0	62.0	0.0	.	48	.	.	Atlas-SNP
LMBRD2	92255	hgsc.bcm.edu	hg19	5	36108707	36108707	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LMBRD2	NM_001007527	exon16	c.A1826G	p.D609G	GTGGAATCTTCTC	.	188.0	8.0	125.0	0.0	.	89	.	.	Atlas-SNP
C5orf42	65250	hgsc.bcm.edu	hg19	5	37115123	37115123	+	Silent	SNP	T	T	C	rs368603190		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C5orf42	NM_023073	exon50	c.A9177G	p.K3059K	ACCAGCTTTTTTC	.	65.0	4.0	55.0	0.0	.	422	.	.	Atlas-SNP
LIFR	3977	hgsc.bcm.edu	hg19	5	38510584	38510584	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LIFR	NM_002310	exon7	c.A973G	p.T325A	TAACGGTTCCAAA	.	114.0	5.0	62.0	0.0	.	348	.	.	Atlas-SNP
NDUFS4	4724	hgsc.bcm.edu	hg19	5	52899338	52899338	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	NDUFS4,NS,carcinoma,0,1	NDUFS4	NM_002495	exon2	c.T155C	p.L52P	CACAACTCATAAC	.	51.0	3.0	49.0	0.0	.	17	.	.	Atlas-SNP
ELOVL7	79993	hgsc.bcm.edu	hg19	5	60050627	60050627	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ELOVL7	NM_001104558	exon8	c.C670T	p.Q224X	AGAACTGGCTTAT	.	111.0	33.0	82.0	0.0	.	24	.	.	Atlas-SNP
PPWD1	23398	hgsc.bcm.edu	hg19	5	64878960	64878960	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPWD1	NM_015342	exon8	c.T1446C	p.T482T	AGCTACTCAAGCT	.	122.0	5.0	75.0	0.0	.	47	.	.	Atlas-SNP
TRAPPC13	80006	hgsc.bcm.edu	hg19	5	64931772	64931772	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TRAPPC13	NM_001243737	exon3	c.A117G	p.G39G	TTCAGGAGATCTC	.	115.0	5.0	76.0	0.0	.	1	.	.	Atlas-SNP
ERBB2IP	55914	hgsc.bcm.edu	hg19	5	65321734	65321734	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ERBB2IP	NM_001253701	exon12	c.T949C	p.S317P	CCTTCATCTATTG	.	170.0	7.0	155.0	0.0	.	120	.	.	Atlas-SNP
MCCC2	64087	hgsc.bcm.edu	hg19	5	70936850	70936850	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MCCC2	NM_022132	exon11	c.T1020C	p.D340D	CGTGGATGGAAGC	.	93.0	4.0	69.0	0.0	.	47	.	.	Atlas-SNP
MAP1B	4131	hgsc.bcm.edu	hg19	5	71492183	71492183	+	Missense_Mutation	SNP	G	G	A	rs144088322		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	MAP1B,colon,carcinoma,0,1	MAP1B	NM_005909	exon5	c.G3001A	p.E1001K	CGAGCCGAAGAAG	.	127.0	43.0	128.0	0.0	.	243	.	G|1.000;A|0.000	Atlas-SNP
MRPS27	23107	hgsc.bcm.edu	hg19	5	71519665	71519665	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	MRPS27,NS,neuroblastoma,0,1	MRPS27	NM_015084	exon10	c.G850A	p.G284S	CTGCACCCAGCAC	.	103.0	0.0	93.0	0.0	.	23	.	.	Atlas-SNP
BHMT2	23743	hgsc.bcm.edu	hg19	5	78375194	78375194	+	Missense_Mutation	SNP	C	C	T	rs141648685		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	BHMT2,NS,carcinoma,0,2	BHMT2	NM_017614	exon3	c.C169T	p.R57C	GTAGTTCGTCAAC	.	49.0	2.0	51.0	0.0	.	44	.	C|1.000;T|0.000	Atlas-SNP
VCAN	1462	hgsc.bcm.edu	hg19	5	82833962	82833962	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	VCAN	NM_004385	exon8	c.T5140C	p.W1714R	TCTGAGTGGATTT	.	89.0	30.0	77.0	0.0	.	498	.	.	Atlas-SNP
VCAN	1462	hgsc.bcm.edu	hg19	5	82836233	82836233	+	Missense_Mutation	SNP	G	G	T	rs370712172	alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	VCAN	NM_004385	exon8	c.G7411T	p.V2471L	CCTGAGGTGCCAA	.	187.0	54.0	116.0	0.0	.	498	.	.	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	hg19	5	90149916	90149916	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR98	NM_032119	exon81	c.T17492C	p.L5831P	CACAACTCCTGAC	.	70.0	4.0	68.0	0.0	.	605	.	.	Atlas-SNP
PPIP5K2	23262	hgsc.bcm.edu	hg19	5	102472511	102472511	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	PPIP5K2,NS,carcinoma,0,1	PPIP5K2	NM_015216	exon3	c.A386G	p.Y129C	TGCAGTATCTCAT	.	69.0	3.0	57.0	0.0	.	98	.	.	Atlas-SNP
NR3C1	2908	hgsc.bcm.edu	hg19	5	142680214	142680214	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NR3C1	NM_001024094	exon5	c.T1586G	p.L529R	GGGGTGAGTTGTG	.	251.0	76.0	234.0	0.0	.	124	.	.	Atlas-SNP
PPARGC1B	133522	hgsc.bcm.edu	hg19	5	149219630	149219630	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPARGC1B	NM_133263	exon9	c.A2645G	p.D882G	GTTCAGACAGAAC	.	120.0	5.0	101.0	0.0	.	74	.	.	Atlas-SNP
PDE6A	5145	hgsc.bcm.edu	hg19	5	149276290	149276290	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PDE6A	NM_000440	exon11	c.A1457G	p.E486G	GCCAGCTCCTCTT	.	101.0	7.0	125.0	0.0	.	98	.	.	Atlas-SNP
SLC36A3	285641	hgsc.bcm.edu	hg19	5	150666921	150666921	+	Silent	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC36A3	NM_001145017	exon7	c.C717A	p.P239P	CAGGAAGGGCAGG	.	224.0	61.0	165.0	0.0	.	54	.	.	Atlas-SNP
TENM2	57451	hgsc.bcm.edu	hg19	5	167553853	167553853	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001122679	exon12	c.C2304T	p.R768R	CCAGCGCGTGTGC	.	231.0	66.0	199.0	0.0	.	.	.	.	Atlas-SNP
SLIT3	6586	hgsc.bcm.edu	hg19	5	168678426	168678426	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLIT3	NM_001271946	exon2	c.A235G	p.M79V	AGTCCATCTTGGT	.	85.0	4.0	57.0	0.0	.	224	.	.	Atlas-SNP
TLX3	30012	hgsc.bcm.edu	hg19	5	170736706	170736706	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TLX3	NM_021025	exon1	c.T337C	p.S113P	ATGCCCTCCGTGC	.	75.0	5.0	55.0	0.0	.	23	.	.	Atlas-SNP
TLX3	30012	hgsc.bcm.edu	hg19	5	170736779	170736779	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TLX3	NM_021025	exon1	c.A410G	p.D137G	TGAAAGACCGCTT	.	54.0	4.0	51.0	0.0	.	23	.	.	Atlas-SNP
PRSS16	10279	hgsc.bcm.edu	hg19	6	27218543	27218543	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRSS16	NM_005865	exon5	c.A549G	p.G183G	CTTCGGAGGCTCC	.	119.0	5.0	90.0	0.0	.	66	.	.	Atlas-SNP
TRIM39-RPP21	202658	hgsc.bcm.edu	hg19	6	30313126	30313126	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001199119	exon7	c.T1156C	p.F386L	GCGAGGTTTTACT	.	220.0	9.0	97.0	0.0	.	.	.	.	Atlas-SNP
DPCR1	135656	hgsc.bcm.edu	hg19	6	30918020	30918020	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DPCR1	NM_080870	exon2	c.G1779A	p.K593K	TGAGAAGACCACA	.	222.0	9.0	98.0	0.0	.	99	.	.	Atlas-SNP
MICA	100507436	hgsc.bcm.edu	hg19	6	31380100	31380100	+	Splice_Site	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MICA	NM_001177519	exon5	c.893-2A>C	.	TTTTTCAGGGAAA	.	219.0	13.0	138.0	0.0	.	21	.	.	Atlas-SNP
MICA	100507436	hgsc.bcm.edu	hg19	6	31380101	31380101	+	Splice_Site	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MICA	NM_001177519	exon5	c.893-1G>A	.	TTTTCAGGGAAAG	.	218.0	10.0	138.0	0.0	.	21	.	.	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	hg19	6	31603384	31603384	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRRC2A	NM_004638	exon24	c.A5399G	p.E1800G	ACTGGGAGCTGCT	.	132.0	7.0	85.0	0.0	.	152	.	.	Atlas-SNP
HLA-DRB1	3123	hgsc.bcm.edu	hg19	6	32549502	32549502	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	HLA-DRB1,NS,carcinoma,0,1	HLA-DRB1	NM_002124	exon3	c.C484G	p.L162V	CGTTCAGGAACCA	.	438.0	0.0	279.0	2.0	.	41	.	.	Atlas-SNP
SYNGAP1	8831	hgsc.bcm.edu	hg19	6	33400496	33400496	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SYNGAP1	NM_006772	exon5	c.T422C	p.I141T	GCTCCATCAAACG	.	99.0	4.0	76.0	0.0	.	202	.	.	Atlas-SNP
ZBTB9	221504	hgsc.bcm.edu	hg19	6	33423129	33423129	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZBTB9	NM_152735	exon2	c.T252C	p.R84R	GCCTCGTCTCACT	.	140.0	6.0	66.0	0.0	.	23	.	.	Atlas-SNP
ETV7	51513	hgsc.bcm.edu	hg19	6	36339181	36339181	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ETV7	NM_001207035	exon5	c.A590G	p.E197G	CCGAGCTCTGCAC	.	95.0	5.0	56.0	0.0	.	31	.	.	Atlas-SNP
MDGA1	266727	hgsc.bcm.edu	hg19	6	37616904	37616904	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MDGA1	NM_153487	exon9	c.C1748A	p.P583Q	GGCGGCGGCAGCA	.	9.0	8.0	0.0	0.0	.	104	.	.	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	hg19	6	38834389	38834389	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNAH8	NM_001206927	exon46	c.A6521G	p.Q2174R	GGCGCCAGGAACT	.	92.0	4.0	53.0	0.0	.	1239	.	.	Atlas-SNP
EFHC1	114327	hgsc.bcm.edu	hg19	6	52303144	52303144	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EFHC1	NM_018100	exon3	c.T328C	p.S110P	CCTATGTCAACTG	.	104.0	5.0	58.0	0.0	.	68	.	.	Atlas-SNP
LRRC1	55227	hgsc.bcm.edu	hg19	6	53787490	53787490	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LRRC1	NM_018214	exon14	c.A1474G	p.T492A	AAAAAGACAGTGG	.	115.0	6.0	68.0	0.0	.	59	.	.	Atlas-SNP
GFRAL	389400	hgsc.bcm.edu	hg19	6	55198671	55198671	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GFRAL	NM_207410	exon3	c.A245G	p.E82G	TTAAAGAGTGTCT	.	94.0	4.0	73.0	0.0	.	91	.	.	Atlas-SNP
UBE3D	90025	hgsc.bcm.edu	hg19	6	83667146	83667146	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_198920	exon9	c.A1034G	p.D345G	CTGATGTCACTTT	.	88.0	4.0	99.0	0.0	.	.	.	.	Atlas-SNP
ASCC3	10973	hgsc.bcm.edu	hg19	6	101163393	101163393	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ASCC3	NM_006828	exon13	c.A2096G	p.N699S	TCCATGTTATTCA	.	75.0	4.0	71.0	0.0	.	205	.	.	Atlas-SNP
REV3L	5980	hgsc.bcm.edu	hg19	6	111686477	111686477	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	REV3L	NM_002912	exon15	c.A6744G	p.T2248T	TGCTTGTGTTAAC	.	51.0	4.0	33.0	0.0	.	386	.	.	Atlas-SNP
GOPC	57120	hgsc.bcm.edu	hg19	6	117923306	117923306	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GOPC	NM_001017408	exon1	c.A146G	p.D49G	AGCAGATCCACAT	.	63.0	4.0	74.0	0.0	.	29	.	.	Atlas-SNP
TMEM244	253582	hgsc.bcm.edu	hg19	6	130182310	130182310	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001010876	exon1	c.T24C	p.A8A	GCTTGGAGCAACT	.	102.0	5.0	91.0	0.0	.	.	.	.	Atlas-SNP
HBS1L	10767	hgsc.bcm.edu	hg19	6	135323883	135323883	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HBS1L	NM_006620	exon5	c.T528C	p.F176F	CACTTCAAATCCC	.	124.0	5.0	118.0	0.0	.	75	.	.	Atlas-SNP
VTA1	51534	hgsc.bcm.edu	hg19	6	142525139	142525139	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	VTA1	NM_016485	exon7	c.A715G	p.I239V	AATACTATCCAAC	.	80.0	4.0	102.0	0.0	.	29	.	.	Atlas-SNP
LATS1	9113	hgsc.bcm.edu	hg19	6	150001577	150001577	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LATS1	NM_004690	exon5	c.A2027G	p.D676G	TGGGCATCTTGAG	.	77.0	4.0	60.0	0.0	.	241	.	.	Atlas-SNP
RAET1L	154064	hgsc.bcm.edu	hg19	6	150343212	150343212	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	RAET1L,NS,carcinoma,0,2	RAET1L	NM_130900	exon2	c.A253C	p.M85L	AGGCCATTGTGAC	.	247.0	0.0	263.0	0.0	.	21	.	.	Atlas-SNP
MTHFD1L	25902	hgsc.bcm.edu	hg19	6	151209073	151209073	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MTHFD1L	NM_001242767	exon7	c.A739G	p.M247V	GGGTCCATGACAA	.	84.0	4.0	105.0	0.0	.	75	.	.	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	hg19	6	152472763	152472763	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SYNE1	NM_182961	exon135	c.A24375G	p.T8125T	CATCTCTGTGAGC	.	71.0	4.0	86.0	0.0	.	3227	.	.	Atlas-SNP
CNKSR3	154043	hgsc.bcm.edu	hg19	6	154731499	154731499	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CNKSR3	NM_173515	exon12	c.A1347G	p.R449R	TCGAGGTCTGGCA	.	88.0	5.0	67.0	0.0	.	56	.	.	Atlas-SNP
T	6862	hgsc.bcm.edu	hg19	6	166578153	166578153	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	T	NM_003181	exon6	c.A670G	p.S224G	GATCACTTCTATC	.	71.0	4.0	59.0	0.0	.	77	.	.	Atlas-SNP
INTS1	26173	hgsc.bcm.edu	hg19	7	1542815	1542815	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	INTS1,colon,carcinoma,0,1	INTS1	NM_001080453	exon3	c.C71G	p.P24R	TCTCCTGGGGGAG	.	156.0	0.0	115.0	0.0	.	145	.	.	Atlas-SNP
CYTH3	9265	hgsc.bcm.edu	hg19	7	6210573	6210573	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CYTH3	NM_004227	exon8	c.T599C	p.L200P	GTGTTGAGCATGA	.	150.0	7.0	94.0	0.0	.	44	.	.	Atlas-SNP
AVL9	23080	hgsc.bcm.edu	hg19	7	32535339	32535339	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AVL9	NM_015060	exon1	c.A18G	p.R6R	CAGGAGAGGCGGG	.	125.0	8.0	41.0	0.0	.	66	.	.	Atlas-SNP
BMPER	168667	hgsc.bcm.edu	hg19	7	33976905	33976905	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BMPER	NM_133468	exon4	c.A224G	p.K75R	AGAACAAGGAAGT	.	98.0	4.0	73.0	0.0	.	131	.	.	Atlas-SNP
BMPER	168667	hgsc.bcm.edu	hg19	7	33976996	33976996	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BMPER	NM_133468	exon4	c.C315A	p.C105X	ACAGTGCAAAGGT	.	97.0	24.0	109.0	0.0	.	131	.	.	Atlas-SNP
CDK13	8621	hgsc.bcm.edu	hg19	7	40027428	40027428	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDK13	NM_003718	exon2	c.A1442G	p.E481G	CTGCTGAGGCTGC	.	89.0	4.0	70.0	0.0	.	114	.	.	Atlas-SNP
MYO1G	64005	hgsc.bcm.edu	hg19	7	45006272	45006272	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYO1G	NM_033054	exon15	c.A1948G	p.R650G	AGTACCTGAGCAG	.	82.0	4.0	83.0	0.0	.	86	.	.	Atlas-SNP
SUN3	256979	hgsc.bcm.edu	hg19	7	48026998	48026998	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SUN3	NM_152782	exon11	c.A1003G	p.N335D	CCCAGTTGCTAAA	.	108.0	5.0	89.0	0.0	.	52	.	.	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	hg19	7	48313397	48313397	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ABCA13	NM_152701	exon17	c.A4134G	p.L1378L	CACGTTAAATTCC	.	82.0	21.0	66.0	0.0	.	1192	.	.	Atlas-SNP
IKZF1	10320	hgsc.bcm.edu	hg19	7	50467992	50467992	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IKZF1	NM_006060	exon8	c.C1227T	p.S409S	GCGCAGCGGTCTC	.	117.0	20.0	71.0	0.0	.	613	.	.	Atlas-SNP
GTF2IRD2	84163	hgsc.bcm.edu	hg19	7	74212037	74212037	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	GTF2IRD2,colon,carcinoma,+1,1	GTF2IRD2	NM_173537	exon16	c.A1814C	p.K605T	CAGAACTTTTTCA	.	736.0	0.0	601.0	1.0	.	38	.	.	Atlas-SNP
ZNF804B	219578	hgsc.bcm.edu	hg19	7	88389389	88389389	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF804B	NM_181646	exon1	c.T99C	p.S33S	CGGATCTCCCTCT	.	144.0	6.0	128.0	0.0	.	322	.	.	Atlas-SNP
ANKIB1	54467	hgsc.bcm.edu	hg19	7	91980374	91980374	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANKIB1	NM_019004	exon8	c.A1196G	p.E399G	CAAAGGAGATGGA	.	98.0	5.0	81.0	0.0	.	92	.	.	Atlas-SNP
COL1A2	1278	hgsc.bcm.edu	hg19	7	94043219	94043219	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL1A2	NM_000089	exon28	c.G1625T	p.G542V	AAGGTGGAAAAGG	.	183.0	20.0	157.0	0.0	.	240	.	.	Atlas-SNP
RELN	5649	hgsc.bcm.edu	hg19	7	103202088	103202088	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RELN	NM_173054	exon36	c.A5420G	p.D1807G	TTGAAATCGTCTT	.	96.0	5.0	97.0	0.0	.	593	.	.	Atlas-SNP
RINT1	60561	hgsc.bcm.edu	hg19	7	105190572	105190572	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RINT1	NM_021930	exon8	c.A1067G	p.Q356R	AGATTCAGCCAAT	.	148.0	6.0	115.0	0.0	.	65	.	.	Atlas-SNP
C7orf60	154743	hgsc.bcm.edu	hg19	7	112461887	112461887	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C7orf60	NM_152556	exon5	c.A1130G	p.D377G	GGCGCATCAGGGA	.	104.0	5.0	84.0	0.0	.	55	.	.	Atlas-SNP
CTTNBP2	83992	hgsc.bcm.edu	hg19	7	117398002	117398002	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CTTNBP2	NM_033427	exon11	c.T3195C	p.G1065G	GCTCTGACCCACT	.	33.0	4.0	59.0	0.0	.	200	.	.	Atlas-SNP
NRF1	4899	hgsc.bcm.edu	hg19	7	129297391	129297391	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NRF1	NM_005011	exon2	c.T200C	p.V67A	ATGAGGTGACAGC	.	81.0	4.0	62.0	0.0	.	40	.	.	Atlas-SNP
DENND2A	27147	hgsc.bcm.edu	hg19	7	140244510	140244510	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DENND2A	NM_015689	exon12	c.T2235C	p.S745S	GAAGAGAGACTCA	.	128.0	8.0	89.0	0.0	.	132	.	.	Atlas-SNP
AGK	55750	hgsc.bcm.edu	hg19	7	141333731	141333731	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AGK	NM_018238	exon10	c.A619T	p.T207S	GCAATGACCGGCC	.	58.0	20.0	34.0	0.0	.	43	.	.	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	hg19	7	141727459	141727459	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MGAM	NM_004668	exon10	c.T1145C	p.L382P	TTCACCTCAGTCG	.	79.0	4.0	57.0	0.0	.	767	.	.	Atlas-SNP
KRBA1	84626	hgsc.bcm.edu	hg19	7	149420823	149420823	+	Splice_Site	SNP	A	A	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KRBA1	NM_032534	exon8	c.773-2A>T	.	TTCCTTAGTGAAG	.	103.0	5.0	95.0	0.0	.	68	.	.	Atlas-SNP
ZNF862	643641	hgsc.bcm.edu	hg19	7	149558251	149558251	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF862	NM_001099220	exon7	c.G2002A	p.D668N	ACAGCAGATGGGT	.	187.0	64.0	177.0	0.0	.	97	.	.	Atlas-SNP
MYOM2	9172	hgsc.bcm.edu	hg19	8	2092705	2092705	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYOM2	NM_003970	exon37	c.T4198C	p.Y1400H	GCCAAGTACGTCA	.	96.0	5.0	112.0	0.0	.	251	.	.	Atlas-SNP
TUSC3	7991	hgsc.bcm.edu	hg19	8	15398006	15398006	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TUSC3	NM_178234	exon1	c.G67A	p.G23R	CCCACCGGGAGCT	.	198.0	81.0	152.0	0.0	.	98	.	.	Atlas-SNP
GOT1L1	137362	hgsc.bcm.edu	hg19	8	37791908	37791908	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GOT1L1	NM_152413	exon9	c.A1169G	p.Y390C	GTGATGTAATTTA	.	301.0	67.0	331.0	0.0	.	87	.	.	Atlas-SNP
PXDNL	137902	hgsc.bcm.edu	hg19	8	52396242	52396242	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	PXDNL_ENST00000356297,rectum,carcinoma,0,1	PXDNL	NM_144651	exon6	c.C485G	p.P162R	CCAGCTGGAATTT	.	300.0	0.0	167.0	0.0	.	414	.	.	Atlas-SNP
MTERFD1	51001	hgsc.bcm.edu	hg19	8	97258633	97258633	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MTERFD1	NM_015942	exon5	c.A727G	p.M243V	TGACCATCTGTGC	.	174.0	7.0	53.0	0.0	.	50	.	.	Atlas-SNP
EMC2	9694	hgsc.bcm.edu	hg19	8	109468100	109468100	+	Splice_Site	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_014673	exon5	c.306-2A>G	.	TTAAATAGATATG	.	117.0	6.0	54.0	0.0	.	.	.	.	Atlas-SNP
FER1L6	654463	hgsc.bcm.edu	hg19	8	125103757	125103757	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FER1L6	NM_001039112	exon34	c.C4485T	p.H1495H	CTTTCACCCTGGG	.	206.0	123.0	99.0	0.0	.	268	.	.	Atlas-SNP
KCNQ3	3786	hgsc.bcm.edu	hg19	8	133192520	133192520	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KCNQ3	NM_004519	exon4	c.G661A	p.V221I	CCAGAACATTGCC	.	99.0	4.0	38.0	0.0	.	164	.	.	Atlas-SNP
SLC45A4	57210	hgsc.bcm.edu	hg19	8	142231725	142231725	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC45A4	NM_001080431	exon2	c.C228T	p.C76C	GCCAACGCAGAGG	.	216.0	32.0	101.0	0.0	.	71	.	.	Atlas-SNP
DENND4C	55667	hgsc.bcm.edu	hg19	9	19361944	19361944	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DENND4C	NM_017925	exon29	c.T5360C	p.V1787A	TGTATGTCTCATG	.	97.0	4.0	61.0	0.0	.	120	.	.	Atlas-SNP
DNAI1	27019	hgsc.bcm.edu	hg19	9	34500786	34500786	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNAI1	NM_012144	exon11	c.G968A	p.W323X	CGCTCTGGAAGTT	.	98.0	4.0	83.0	0.0	.	72	.	.	Atlas-SNP
DNAI1	27019	hgsc.bcm.edu	hg19	9	34500787	34500787	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNAI1	NM_012144	exon11	c.G969T	p.W323C	GCTCTGGAAGTTC	.	98.0	4.0	82.0	0.0	.	72	.	.	Atlas-SNP
TPM2	7169	hgsc.bcm.edu	hg19	9	35683240	35683240	+	Splice_Site	SNP	T	T	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	TPM2	NM_003289	exon10	c.773-2A>C	.	TTCATCTGGGGGG	.	237.0	14.0	216.0	2.0	.	64	.	.	Atlas-SNP
DAPK1	1612	hgsc.bcm.edu	hg19	9	90296403	90296403	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DAPK1	NM_004938	exon20	c.T2086C	p.S696P	GGCCACTCGGGAT	.	112.0	6.0	109.0	0.0	.	329	.	.	Atlas-SNP
SPATA31E1	286234	hgsc.bcm.edu	hg19	9	90502871	90502871	+	Missense_Mutation	SNP	T	T	C	rs201052734	bycluster;alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_178828	exon4	c.T3469C	p.S1157P	AGTGTGTCTGGTA	.	87.0	5.0	82.0	0.0	.	.	.	T|0.999;A|0.001	Atlas-SNP
LOC286238	0	hgsc.bcm.edu	hg19	9	91262355	91262355	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001100111	exon2	c.T288C	p.C96C	AAGATGACACGCT	.	89.0	5.0	99.0	0.0	.	.	.	.	Atlas-SNP
ZNF782	158431	hgsc.bcm.edu	hg19	9	99581649	99581649	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF782	NM_001001662	exon6	c.A656G	p.E219G	CTACTTTCATTAT	.	75.0	4.0	61.0	0.0	.	64	.	.	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	hg19	9	113191515	113191515	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SVEP1	NM_153366	exon35	c.T5715C	p.C1905C	ACTAGAACACTTC	.	43.0	4.0	57.0	0.0	.	326	.	.	Atlas-SNP
KIAA0368	23392	hgsc.bcm.edu	hg19	9	114213753	114213753	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIAA0368	NM_001080398	exon4	c.T639C	p.P213P	AACAGGAGGAAGG	.	75.0	5.0	60.0	0.0	.	144	.	.	Atlas-SNP
TLR4	7099	hgsc.bcm.edu	hg19	9	120476060	120476060	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TLR4	NM_138554	exon3	c.A1654G	p.S552G	GATTACAGTCTCA	.	91.0	4.0	61.0	0.0	.	220	.	.	Atlas-SNP
SCAI	286205	hgsc.bcm.edu	hg19	9	127904935	127904935	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SCAI	NM_173690	exon2	c.A75G	p.K25K	AGGCGGTTTCTCC	.	72.0	4.0	96.0	0.0	.	84	.	.	Atlas-SNP
TTC16	158248	hgsc.bcm.edu	hg19	9	130491908	130491908	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTC16	NM_144965	exon13	c.A1813G	p.S605G	TCTGACAGCTACC	.	78.0	5.0	68.0	0.0	.	55	.	.	Atlas-SNP
TTC16	158248	hgsc.bcm.edu	hg19	9	130492952	130492952	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTC16	NM_144965	exon14	c.T1890C	p.A630A	GTCGGCTATCTGC	.	97.0	4.0	94.0	0.0	.	55	.	.	Atlas-SNP
TRUB2	26995	hgsc.bcm.edu	hg19	9	131076096	131076096	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TRUB2	NM_015679	exon5	c.A451G	p.T151A	AGGTTGTCTTCTC	.	119.0	5.0	107.0	0.0	.	26	.	.	Atlas-SNP
FNBP1	23048	hgsc.bcm.edu	hg19	9	132662819	132662819	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FNBP1	NM_015033	exon14	c.T1436C	p.L479P	TCAGCCAGCCAGG	.	59.0	4.0	70.0	0.0	.	51	.	.	Atlas-SNP
SURF1	6834	hgsc.bcm.edu	hg19	9	136218808	136218808	+	Missense_Mutation	SNP	A	A	G	rs200841752	by1000genomes;alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SURF1	NM_003172	exon9	c.T863C	p.L288P	AACCACAGGTAGG	.	83.0	4.0	83.0	0.0	.	15	.	A|1.000;C|0.000	Atlas-SNP
GLT6D1	360203	hgsc.bcm.edu	hg19	9	138516016	138516016	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GLT6D1	NM_182974	exon5	c.A758G	p.D253G	TTGATGTCATGAA	.	126.0	6.0	102.0	0.0	.	56	.	.	Atlas-SNP
QSOX2	169714	hgsc.bcm.edu	hg19	9	139100989	139100989	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	QSOX2	NM_181701	exon12	c.A1682G	p.H561R	CCATAGTGCTGCT	.	87.0	4.0	91.0	0.0	.	63	.	.	Atlas-SNP
PMPCA	23203	hgsc.bcm.edu	hg19	9	139313097	139313097	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PMPCA	NM_015160	exon9	c.T1081C	p.S361P	ATGTTCTCCAGGC	.	154.0	7.0	117.0	0.0	.	29	.	.	Atlas-SNP
MCM10	55388	hgsc.bcm.edu	hg19	10	13239739	13239739	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MCM10	NM_182751	exon15	c.A2094G	p.V698V	ACGTGTAGAAAAA	.	93.0	4.0	59.0	0.0	.	76	.	.	Atlas-SNP
MASTL	84930	hgsc.bcm.edu	hg19	10	27448581	27448581	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MASTL	NM_032844	exon3	c.T358C	p.S120P	GTCAAGTCTCTCC	.	62.0	4.0	54.0	0.0	.	81	.	.	Atlas-SNP
A1CF	29974	hgsc.bcm.edu	hg19	10	52603752	52603752	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	A1CF	NM_001198820	exon5	c.A254G	p.E85G	ACTTTTTCACATA	.	90.0	4.0	82.0	0.0	.	190	.	.	Atlas-SNP
IPMK	253430	hgsc.bcm.edu	hg19	10	59986874	59986874	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IPMK	NM_152230	exon3	c.T303C	p.G101G	AAGAACACCATCA	.	58.0	4.0	57.0	0.0	.	45	.	.	Atlas-SNP
BICC1	80114	hgsc.bcm.edu	hg19	10	60549664	60549664	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BICC1	NM_001080512	exon8	c.T1018C	p.S340P	ATTGAGTCTGTCT	.	96.0	5.0	80.0	0.0	.	121	.	.	Atlas-SNP
SLC16A9	220963	hgsc.bcm.edu	hg19	10	61413574	61413574	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC16A9	NM_194298	exon5	c.A1210G	p.I404V	CTAGGATCCCAGA	.	97.0	4.0	70.0	0.0	.	58	.	.	Atlas-SNP
ANK3	288	hgsc.bcm.edu	hg19	10	61819139	61819139	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANK3	NM_020987	exon41	c.T12645C	p.A4215A	TCTTCGAGCTTGA	.	173.0	7.0	165.0	0.0	.	703	.	.	Atlas-SNP
TET1	80312	hgsc.bcm.edu	hg19	10	70333306	70333306	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TET1	NM_030625	exon2	c.T1211C	p.V404A	TTCCAGTCCAAGG	.	111.0	5.0	99.0	0.0	.	255	.	.	Atlas-SNP
NEUROG3	50674	hgsc.bcm.edu	hg19	10	71332756	71332756	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	NEUROG3,NS,carcinoma,0,1	NEUROG3	NM_020999	exon2	c.G44A	p.R15H	GTCTCACGGGTCA	.	74.0	3.0	97.0	0.0	.	33	.	.	Atlas-SNP
ASCC1	51008	hgsc.bcm.edu	hg19	10	73862147	73862147	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ASCC1	NM_001198799	exon12	c.A1183G	p.S395G	GTAGGCTCTGAGA	.	115.0	5.0	121.0	0.0	.	18	.	.	Atlas-SNP
SYNPO2L	79933	hgsc.bcm.edu	hg19	10	75407601	75407601	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SYNPO2L	NM_001114133	exon4	c.T1809C	p.A603A	CTCAGGAGCCCCT	.	62.0	4.0	42.0	0.0	.	118	.	.	Atlas-SNP
FAM213A	84293	hgsc.bcm.edu	hg19	10	82182254	82182254	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_032333	exon3	c.T260C	p.L87P	GTTTCCTCTGTCG	.	69.0	4.0	62.0	0.0	.	.	.	.	Atlas-SNP
GHITM	27069	hgsc.bcm.edu	hg19	10	85904722	85904722	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GHITM	NM_014394	exon5	c.A433C	p.I145L	ATAGCAATCAGCA	.	182.0	67.0	175.0	0.0	.	30	.	.	Atlas-SNP
WAPAL	23063	hgsc.bcm.edu	hg19	10	88230752	88230752	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WAPAL	NM_015045	exon8	c.T2139C	p.H713H	TACCTGATGGTGC	.	92.0	4.0	92.0	0.0	.	81	.	.	Atlas-SNP
MYOF	26509	hgsc.bcm.edu	hg19	10	95111559	95111559	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYOF	NM_013451	exon33	c.G3526A	p.E1176K	TGATCTCAGTGGT	.	79.0	5.0	58.0	0.0	.	177	.	.	Atlas-SNP
FFAR4	338557	hgsc.bcm.edu	hg19	10	95338962	95338962	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_181745	exon3	c.A743G	p.E248G	ACAGTGAGGTAAA	.	80.0	5.0	53.0	0.0	.	.	.	.	Atlas-SNP
ZFYVE27	118813	hgsc.bcm.edu	hg19	10	99517436	99517436	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZFYVE27	NM_001002261	exon11	c.G1142T	p.R381L	GCTCTCGATGCTG	.	172.0	57.0	158.0	0.0	.	31	.	.	Atlas-SNP
R3HCC1L	27291	hgsc.bcm.edu	hg19	10	99991437	99991437	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	R3HCC1L	NM_001256619	exon7	c.A1996G	p.S666G	TTCTGCAGTTATC	.	109.0	5.0	79.0	0.0	.	3	.	.	Atlas-SNP
PSD	5662	hgsc.bcm.edu	hg19	10	104163074	104163074	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PSD	NM_001270965	exon18	c.A2958G	p.G986G	AGGGAGTCCATCC	.	133.0	6.0	132.0	0.0	.	164	.	.	Atlas-SNP
PLEKHS1	79949	hgsc.bcm.edu	hg19	10	115537241	115537241	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PLEKHS1	NM_182601	exon12	c.T1240C	p.F414L	CCTGGGTTCAGGA	.	92.0	4.0	126.0	0.0	.	19	.	.	Atlas-SNP
PRDX3	10935	hgsc.bcm.edu	hg19	10	120933332	120933332	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRDX3	NM_006793	exon4	c.T364C	p.F122L	CGTGAAATTCGTT	.	77.0	4.0	53.0	0.0	.	15	.	.	Atlas-SNP
MCMBP	79892	hgsc.bcm.edu	hg19	10	121607167	121607167	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MCMBP	NM_024834	exon8	c.T785C	p.L262P	ACAGACAGTATGC	.	78.0	4.0	72.0	0.0	.	49	.	.	Atlas-SNP
WDR11	55717	hgsc.bcm.edu	hg19	10	122643322	122643322	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	WDR11,colon,carcinoma,0,1	WDR11	NM_018117	exon14	c.A1770G	p.K590K	AGATAAACCCCTG	.	71.0	3.0	63.0	0.0	.	95	.	.	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	hg19	11	1094691	1094691	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MUC2	NM_002457	exon32	c.G5767T	p.G1923W	ACGACCGGGTCAT	.	146.0	7.0	108.0	0.0	.	614	.	.	Atlas-SNP
KCNQ1	3784	hgsc.bcm.edu	hg19	11	2609986	2609986	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KCNQ1	NM_000218	exon10	c.C1295T	p.T432I	GGGTGACTCCTGG	.	100.0	5.0	51.0	0.0	.	60	.	.	Atlas-SNP
SMPD1	6609	hgsc.bcm.edu	hg19	11	6411960	6411960	+	Silent	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SMPD1	NM_000543	exon1	c.G132T	p.A44A	GCTGGCGCTGGCG	.	46.0	6.0	18.0	0.0	.	108	.	.	Atlas-SNP
DNHD1	144132	hgsc.bcm.edu	hg19	11	6592498	6592498	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNHD1	NM_144666	exon42	c.T13756C	p.F4586L	TCAGCCTTTCGCC	.	88.0	4.0	62.0	0.0	.	198	.	.	Atlas-SNP
FAR1	84188	hgsc.bcm.edu	hg19	11	13732397	13732397	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAR1	NM_032228	exon5	c.A703G	p.S235G	GGTGCCAGTTGGA	.	119.0	5.0	104.0	0.0	.	40	.	.	Atlas-SNP
COPB1	1315	hgsc.bcm.edu	hg19	11	14487826	14487826	+	Splice_Site	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COPB1	NM_001144062	exon18	c.2290+2T>C	.	TTCCTCACCTAGT	.	97.0	4.0	66.0	0.0	.	81	.	.	Atlas-SNP
NDUFS3	4722	hgsc.bcm.edu	hg19	11	47603658	47603658	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NDUFS3	NM_004551	exon5	c.T400C	p.S134P	CTGTTGTCTCTGC	.	219.0	9.0	207.0	0.0	.	19	.	.	Atlas-SNP
OR4C16	219428	hgsc.bcm.edu	hg19	11	55339830	55339830	+	Missense_Mutation	SNP	C	C	G	rs372108090	alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	OR4C16,mouth,carcinoma,0,3	OR4C16	NM_001004701	exon1	c.C227G	p.T76S	CCATAACCCCTAG	.	217.0	11.0	145.0	0.0	.	104	.	.	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	hg19	11	62300880	62300880	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AHNAK	NM_001620	exon5	c.T1009C	p.S337P	CCACAGAGACTTC	.	143.0	7.0	85.0	0.0	.	532	.	.	Atlas-SNP
MARK2	2011	hgsc.bcm.edu	hg19	11	63675749	63675749	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MARK2	NM_001039469	exon18	c.A1979G	p.E660G	AACCTGAAAGCAA	.	82.0	4.0	85.0	0.0	.	91	.	.	Atlas-SNP
ATG2A	23130	hgsc.bcm.edu	hg19	11	64664282	64664282	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATG2A	NM_015104	exon38	c.G5210T	p.R1737L	TTCTTGCGGATGT	.	143.0	27.0	109.0	0.0	.	133	.	.	Atlas-SNP
EHBP1L1	254102	hgsc.bcm.edu	hg19	11	65350589	65350589	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EHBP1L1	NM_001099409	exon9	c.A2446G	p.T816A	GCAGAAACTGAGA	.	135.0	6.0	92.0	0.0	.	64	.	.	Atlas-SNP
PCNXL3	399909	hgsc.bcm.edu	hg19	11	65391400	65391400	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCNXL3	NM_032223	exon13	c.A2512G	p.S838G	TTCCAGAGCGTGC	.	124.0	5.0	98.0	0.0	.	140	.	.	Atlas-SNP
SYT12	91683	hgsc.bcm.edu	hg19	11	66811279	66811279	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SYT12	NM_001177880	exon5	c.G792A	p.P264P	CCTCCCGCTGCAG	.	109.0	17.0	84.0	0.0	.	60	.	.	Atlas-SNP
AIP	9049	hgsc.bcm.edu	hg19	11	67258394	67258394	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AIP	NM_003977	exon6	c.C923G	p.A308G	TGCAGGCCCTGGA	.	192.0	8.0	125.0	0.0	.	26	.	.	Atlas-SNP
SHANK2	22941	hgsc.bcm.edu	hg19	11	70332097	70332097	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SHANK2	NM_133266	exon10	c.T2537C	p.L846P	TCTGAGAGAGCCG	.	107.0	5.0	63.0	0.0	.	340	.	.	Atlas-SNP
CAPN5	726	hgsc.bcm.edu	hg19	11	76834767	76834767	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CAPN5	NM_004055	exon13	c.C1774T	p.L592L	GAATTTCTGGGCC	.	96.0	4.0	98.0	0.0	.	67	.	.	Atlas-SNP
KIAA1731	85459	hgsc.bcm.edu	hg19	11	93432541	93432541	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIAA1731	NM_033395	exon15	c.T4463A	p.F1488Y	GTAAATTTGAGGA	.	149.0	43.0	106.0	0.0	.	173	.	.	Atlas-SNP
C11orf54	28970	hgsc.bcm.edu	hg19	11	93488394	93488394	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C11orf54	NM_014039	exon6	c.A349G	p.T117A	ATTCAGACAGAAA	.	95.0	4.0	55.0	0.0	.	23	.	.	Atlas-SNP
DYNC2H1	79659	hgsc.bcm.edu	hg19	11	103173919	103173919	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DYNC2H1	NM_001080463	exon77	c.T11214C	p.A3738A	GGGTGCTGATCCT	.	95.0	4.0	74.0	0.0	.	246	.	.	Atlas-SNP
CASP5	838	hgsc.bcm.edu	hg19	11	104871171	104871171	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CASP5	NM_001136112	exon6	c.T808C	p.S270P	TGTCAGAGGACTT	.	171.0	7.0	134.0	0.0	.	213	.	.	Atlas-SNP
CWF19L2	143884	hgsc.bcm.edu	hg19	11	107197734	107197734	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CWF19L2	NM_152434	exon18	c.A2587G	p.K863E	TGCCTTTCCTCCA	.	74.0	4.0	65.0	0.0	.	135	.	.	Atlas-SNP
ZC3H12C	85463	hgsc.bcm.edu	hg19	11	110035965	110035965	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZC3H12C	NM_033390	exon6	c.T2155C	p.S719P	GCCCGGTCCAGCT	.	137.0	6.0	113.0	0.0	.	83	.	.	Atlas-SNP
PPP2R1B	5519	hgsc.bcm.edu	hg19	11	111618722	111618722	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPP2R1B	NM_002716	exon11	c.A1355G	p.D452G	TTTTCATCAAAGA	.	66.0	4.0	56.0	0.0	.	44	.	.	Atlas-SNP
FDXACB1	91893	hgsc.bcm.edu	hg19	11	111747356	111747356	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FDXACB1	NM_138378	exon4	c.G541A	p.D181N	ACTTATCTTGACT	.	86.0	4.0	56.0	0.0	.	74	.	.	Atlas-SNP
REXO2	25996	hgsc.bcm.edu	hg19	11	114316717	114316717	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	REXO2	NM_015523	exon5	c.A438G	p.E146E	TCATGAAGATAAG	.	98.0	5.0	49.0	0.0	.	12	.	.	Atlas-SNP
CADM1	23705	hgsc.bcm.edu	hg19	11	115099840	115099840	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CADM1	NM_014333	exon5	c.A714G	p.E238E	CTGTACTTCTAGA	.	72.0	6.0	54.0	0.0	.	74	.	.	Atlas-SNP
IL10RA	3587	hgsc.bcm.edu	hg19	11	117860327	117860327	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IL10RA	NM_001558	exon3	c.T359C	p.V120A	TCTCTGTGGATGA	.	73.0	4.0	80.0	0.0	.	46	.	.	Atlas-SNP
BCL9L	283149	hgsc.bcm.edu	hg19	11	118771996	118771996	+	Missense_Mutation	SNP	C	C	T	rs374181286		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BCL9L	NM_182557	exon6	c.G2456A	p.R819Q	CGAACCCGGGCCA	.	80.0	5.0	74.0	0.0	.	254	.	.	Atlas-SNP
HYOU1	10525	hgsc.bcm.edu	hg19	11	118926262	118926262	+	Silent	SNP	C	C	T	rs376675681		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HYOU1	NM_006389	exon4	c.G207A	p.P69P	GATCACCGGTGTT	.	152.0	20.0	107.0	0.0	.	88	.	.	Atlas-SNP
TECTA	7007	hgsc.bcm.edu	hg19	11	120989419	120989419	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TECTA	NM_005422	exon6	c.A1195G	p.R399G	TATGGAAGAGTCA	.	76.0	4.0	40.0	0.0	.	329	.	.	Atlas-SNP
OR8D1	283159	hgsc.bcm.edu	hg19	11	124180206	124180206	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR8D1	NM_001002917	exon1	c.T457C	p.F153L	AGAGAAAGCCCAA	.	81.0	4.0	61.0	0.0	.	53	.	.	Atlas-SNP
HEPN1	641654	hgsc.bcm.edu	hg19	11	124789756	124789756	+	Missense_Mutation	SNP	G	G	C	rs201178398	bycluster;alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	HEPN1,NS,carcinoma,0,1	HEPN1	NM_001037558	exon1	c.G110C	p.W37S	GGGAATGGAATAC	.	167.0	0.0	170.0	0.0	.	11	.	.	Atlas-SNP
SPATA19	219938	hgsc.bcm.edu	hg19	11	133711936	133711936	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SPATA19	NM_174927	exon6	c.T502C	p.X168R	GCTCTCAGCAGTC	.	117.0	41.0	66.0	0.0	.	36	.	.	Atlas-SNP
EFCAB4B	84766	hgsc.bcm.edu	hg19	12	3789421	3789421	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EFCAB4B	NM_001144958	exon5	c.A323G	p.E108G	GTGAACTCCTGTG	.	158.0	7.0	134.0	0.0	.	100	.	.	Atlas-SNP
CD163L1	283316	hgsc.bcm.edu	hg19	12	7521548	7521548	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CD163L1	NM_174941	exon16	c.A4053G	p.K1351K	CAGTGATTTCAGC	.	61.0	5.0	43.0	0.0	.	238	.	.	Atlas-SNP
SLC2A3	6515	hgsc.bcm.edu	hg19	12	8085609	8085609	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC2A3	NM_006931	exon3	c.C243T	p.V81V	GAGTCCGACGGAA	.	89.0	4.0	109.0	0.0	.	83	.	.	Atlas-SNP
TAS2R42	353164	hgsc.bcm.edu	hg19	12	11338615	11338615	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TAS2R42	NM_181429	exon1	c.A929C	p.N310T	AAAGCATTTGGTG	.	99.0	6.0	103.0	0.0	.	30	.	.	Atlas-SNP
GUCY2C	2984	hgsc.bcm.edu	hg19	12	14829894	14829894	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	GUCY2C,NS,carcinoma,0,1	GUCY2C	NM_004963	exon7	c.T842G	p.F281C	TCCTCAAAGTACT	.	206.0	0.0	151.0	0.0	.	126	.	.	Atlas-SNP
SLCO1C1	53919	hgsc.bcm.edu	hg19	12	20885932	20885932	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	SLCO1C1_ENST00000381552,NS,carcinoma,0,2	SLCO1C1	NM_017435	exon10	c.A1276G	p.K426E	GCTGCAAAACTCT	.	159.0	0.0	154.0	0.0	.	216	.	.	Atlas-SNP
OVCH1	341350	hgsc.bcm.edu	hg19	12	29626034	29626034	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OVCH1	NM_183378	exon15	c.T1603C	p.S535P	TTAAAGACTCTGT	.	48.0	4.0	35.0	0.0	.	195	.	.	Atlas-SNP
BICD1	636	hgsc.bcm.edu	hg19	12	32369392	32369392	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BICD1	NM_001714	exon2	c.A425G	p.E142G	TGAAGGAGGTAAA	.	76.0	4.0	53.0	0.0	.	89	.	.	Atlas-SNP
SENP1	29843	hgsc.bcm.edu	hg19	12	48482714	48482714	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SENP1	NM_001267594	exon5	c.T250C	p.S84P	CGCCTGAGCCAAG	.	100.0	38.0	67.0	0.0	.	44	.	.	Atlas-SNP
DNAJC22	79962	hgsc.bcm.edu	hg19	12	49743118	49743118	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNAJC22	NM_024902	exon2	c.A463G	p.I155V	CTGCCCATTAGCG	.	86.0	18.0	54.0	0.0	.	29	.	.	Atlas-SNP
LARP4	113251	hgsc.bcm.edu	hg19	12	50822817	50822817	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LARP4	NM_001170808	exon3	c.C266T	p.T89I	AATCAACTGATGG	.	75.0	4.0	55.0	0.0	.	58	.	.	Atlas-SNP
KRT79	338785	hgsc.bcm.edu	hg19	12	53227932	53227932	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KRT79	NM_175834	exon1	c.T113C	p.V38A	CGAGACACCGTCA	.	93.0	4.0	80.0	0.0	.	78	.	.	Atlas-SNP
TENC1	23371	hgsc.bcm.edu	hg19	12	53453176	53453176	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TENC1	NM_015319	exon18	c.A1781G	p.H594R	CAGGCCATAGGCC	.	52.0	5.0	36.0	0.0	.	148	.	.	Atlas-SNP
HOXC10	3226	hgsc.bcm.edu	hg19	12	54383171	54383171	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HOXC10	NM_017409	exon2	c.A970G	p.K324E	AAACTCAAGAAAA	.	86.0	4.0	95.0	0.0	.	42	.	.	Atlas-SNP
OR6C6	283365	hgsc.bcm.edu	hg19	12	55688668	55688668	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR6C6	NM_001005493	exon1	c.T349C	p.S117P	CATAGGACATGGC	.	78.0	4.0	62.0	0.0	.	56	.	.	Atlas-SNP
OR6C1	390321	hgsc.bcm.edu	hg19	12	55714705	55714705	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR6C1	NM_001005182	exon1	c.A322G	p.T108A	GGAGTCACAGAGT	.	58.0	4.0	57.0	0.0	.	58	.	.	Atlas-SNP
OR10P1	121130	hgsc.bcm.edu	hg19	12	56031281	56031281	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR10P1	NM_206899	exon1	c.A606G	p.T202T	GATGACAGCCACC	.	87.0	4.0	77.0	0.0	.	48	.	.	Atlas-SNP
SMARCC2	6601	hgsc.bcm.edu	hg19	12	56565643	56565643	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SMARCC2	NM_139067	exon21	c.C2005G	p.H669D	GAAAATGCAAGAT	.	106.0	21.0	93.0	0.0	.	212	.	.	Atlas-SNP
SHMT2	6472	hgsc.bcm.edu	hg19	12	57627373	57627373	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SHMT2	NM_005412	exon9	c.T1051C	p.S351P	GAGTACTCCCTGC	.	76.0	5.0	94.0	0.0	.	40	.	.	Atlas-SNP
CAND1	55832	hgsc.bcm.edu	hg19	12	67698891	67698891	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CAND1	NM_018448	exon10	c.T1443C	p.I481I	AATCATTTTCTCA	.	59.0	4.0	48.0	0.0	.	100	.	.	Atlas-SNP
NAV3	89795	hgsc.bcm.edu	hg19	12	78531131	78531131	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	NAV3,larynx,carcinoma,0,1	NAV3	NM_014903	exon19	c.A4616G	p.D1539G	TCAGAGACAGCAT	.	39.0	2.0	31.0	0.0	.	506	.	.	Atlas-SNP
FGD6	55785	hgsc.bcm.edu	hg19	12	95604472	95604472	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FGD6	NM_018351	exon2	c.T588C	p.S196S	CTGTGCAGAAATA	.	146.0	6.0	131.0	0.0	.	127	.	.	Atlas-SNP
APAF1	317	hgsc.bcm.edu	hg19	12	99042548	99042548	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	APAF1	NM_001160	exon3	c.T283C	p.S95P	GTTGTCTCTTCTT	.	151.0	7.0	111.0	0.0	.	111	.	.	Atlas-SNP
WSCD2	9671	hgsc.bcm.edu	hg19	12	108589990	108589990	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WSCD2	NM_014653	exon2	c.A381G	p.R127R	AGAGCGAGGTAAG	.	71.0	5.0	56.0	0.0	.	125	.	.	Atlas-SNP
ANAPC7	51434	hgsc.bcm.edu	hg19	12	110826388	110826388	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANAPC7	NM_016238	exon4	c.A551G	p.Q184R	CGCTCCTGACCAG	.	98.0	4.0	87.0	0.0	.	68	.	.	Atlas-SNP
TMEM116	89894	hgsc.bcm.edu	hg19	12	112374971	112374971	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMEM116	NM_001193531	exon7	c.A442G	p.S148G	TGTGGCTCTGACT	.	120.0	5.0	108.0	0.0	.	17	.	.	Atlas-SNP
SUDS3	64426	hgsc.bcm.edu	hg19	12	118838515	118838515	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SUDS3	NM_022491	exon7	c.A569G	p.N190S	GACCAAATGATCC	.	97.0	4.0	85.0	0.0	.	26	.	.	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	hg19	12	124413861	124413861	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNAH10	NM_207437	exon70	c.A11992G	p.R3998G	AACATGAGGGCAA	.	98.0	6.0	83.0	0.0	.	888	.	.	Atlas-SNP
POLE	5426	hgsc.bcm.edu	hg19	12	133249252	133249252	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	POLE	NM_006231	exon15	c.T1647C	p.S549S	AACCCCAGACTCG	.	54.0	4.0	73.0	0.0	.	416	.	.	Atlas-SNP
ANKLE2	23141	hgsc.bcm.edu	hg19	12	133310972	133310972	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANKLE2	NM_015114	exon10	c.T1890C	p.S630S	CTTACCAGACGTG	.	93.0	4.0	70.0	0.0	.	76	.	.	Atlas-SNP
RNF17	56163	hgsc.bcm.edu	hg19	13	25363884	25363884	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RNF17	NM_001184993	exon9	c.A909G	p.G303G	TATGGGAAAGATT	.	86.0	4.0	59.0	0.0	.	259	.	.	Atlas-SNP
VWA8	23078	hgsc.bcm.edu	hg19	13	42263625	42263625	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_015058	exon34	c.T3996C	p.P1332P	TTTATGAGGTATG	.	82.0	4.0	62.0	0.0	.	.	.	.	Atlas-SNP
RCBTB1	55213	hgsc.bcm.edu	hg19	13	50118925	50118925	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RCBTB1	NM_018191	exon10	c.T1120C	p.F374L	TTCGAAACTTCAG	.	88.0	4.0	72.0	0.0	.	34	.	.	Atlas-SNP
PIBF1	10464	hgsc.bcm.edu	hg19	13	73482702	73482702	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PIBF1	NM_006346	exon12	c.T1522C	p.S508P	CAAGCCTCTTCTG	.	95.0	7.0	55.0	0.0	.	65	.	.	Atlas-SNP
KLF5	688	hgsc.bcm.edu	hg19	13	73636093	73636093	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLF5	NM_001730	exon2	c.T356C	p.V119A	CCTCAGTCGTAGA	.	100.0	4.0	83.0	0.0	.	59	.	.	Atlas-SNP
KLF5	688	hgsc.bcm.edu	hg19	13	73650024	73650024	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLF5	NM_001730	exon4	c.A1374G	p.X458W	GAACTGAGCACTG	.	91.0	4.0	70.0	0.0	.	59	.	.	Atlas-SNP
LMO7	4008	hgsc.bcm.edu	hg19	13	76381924	76381924	+	Missense_Mutation	SNP	G	G	A	rs369620389	alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LMO7	NM_015842	exon7	c.G806A	p.C269Y	TACAGTGTAGAGA	.	91.0	5.0	54.0	0.0	.	334	.	.	Atlas-SNP
SLITRK6	84189	hgsc.bcm.edu	hg19	13	86369434	86369434	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLITRK6	NM_032229	exon2	c.G1210A	p.E404K	ATCCTTCTTCAAG	.	107.0	15.0	40.0	0.0	.	150	.	.	Atlas-SNP
BIVM-ERCC5	0	hgsc.bcm.edu	hg19	13	103486900	103486900	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001204425	exon7	c.A1119G	p.K373K	CTGTAAAAAGTAT	.	99.0	4.0	59.0	0.0	.	.	.	.	Atlas-SNP
OR11G2	390439	hgsc.bcm.edu	hg19	14	20665742	20665742	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR11G2	NM_001005503	exon1	c.T248C	p.I83T	GTTCCATCATCTG	.	105.0	5.0	110.0	0.0	.	73	.	.	Atlas-SNP
OR6S1	341799	hgsc.bcm.edu	hg19	14	21109487	21109487	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR6S1	NM_001001968	exon1	c.G364A	p.A122T	GATCCGCAGACAT	.	117.0	23.0	114.0	0.0	.	49	.	.	Atlas-SNP
HECTD1	25831	hgsc.bcm.edu	hg19	14	31575935	31575935	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HECTD1	NM_015382	exon38	c.A7143G	p.E2381E	CTCATCTTCAGAA	.	95.0	4.0	82.0	0.0	.	159	.	.	Atlas-SNP
HECTD1	25831	hgsc.bcm.edu	hg19	14	31626433	31626433	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HECTD1	NM_015382	exon11	c.G1699A	p.D567N	CAACATCAGAATC	.	186.0	70.0	194.0	0.0	.	159	.	.	Atlas-SNP
NPAS3	64067	hgsc.bcm.edu	hg19	14	33684760	33684760	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NPAS3	NM_173159	exon3	c.T313C	p.S105P	TGGAAATCTGAAC	.	97.0	4.0	83.0	0.0	.	266	.	.	Atlas-SNP
PPP2R3C	55012	hgsc.bcm.edu	hg19	14	35554856	35554856	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPP2R3C	NM_017917	exon13	c.G1302A	p.E434E	TCTGTTCTCGTAA	.	86.0	4.0	110.0	0.0	.	44	.	.	Atlas-SNP
FBXO33	254170	hgsc.bcm.edu	hg19	14	39868748	39868748	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FBXO33	NM_203301	exon4	c.A1640G	p.E547G	TGCATCTCTCTGT	.	125.0	5.0	179.0	0.0	.	21	.	.	Atlas-SNP
CDKL1	8814	hgsc.bcm.edu	hg19	14	50805678	50805678	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDKL1	NM_004196	exon6	c.A728G	p.D243G	TCAGGGTCTGGAA	.	117.0	7.0	96.0	0.0	.	50	.	.	Atlas-SNP
MAP4K5	11183	hgsc.bcm.edu	hg19	14	50889884	50889884	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAP4K5	NM_006575	exon31	c.A2408G	p.E803G	GAAATCTCCTGGG	.	113.0	5.0	74.0	0.0	.	48	.	.	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	hg19	14	64460661	64460661	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SYNE2	NM_182914	exon22	c.A2755G	p.S919G	GAAAAGAGTAGAG	.	124.0	5.0	83.0	0.0	.	577	.	.	Atlas-SNP
LTBP2	4053	hgsc.bcm.edu	hg19	14	74976066	74976066	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LTBP2	NM_000428	exon22	c.A3278G	p.D1093G	TCTAGGTCTGCAG	.	109.0	5.0	112.0	0.0	.	158	.	.	Atlas-SNP
MLH3	27030	hgsc.bcm.edu	hg19	14	75515828	75515828	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MLH3	NM_014381	exon2	c.T531C	p.A177A	TGAGAGAGCTTCT	.	62.0	5.0	74.0	0.0	.	200	.	.	Atlas-SNP
IFT43	112752	hgsc.bcm.edu	hg19	14	76549846	76549846	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IFT43	NM_052873	exon8	c.T568C	p.S190P	GTGTCCTCAGAGG	.	58.0	4.0	65.0	0.0	.	63	.	.	Atlas-SNP
SEL1L	6400	hgsc.bcm.edu	hg19	14	81952089	81952089	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SEL1L	NM_005065	exon18	c.A1800G	p.R600R	TGCTTCTCCTACA	.	125.0	5.0	121.0	0.0	.	67	.	.	Atlas-SNP
SEL1L	6400	hgsc.bcm.edu	hg19	14	81961452	81961452	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SEL1L	NM_005065	exon11	c.A1158G	p.G386G	ACGCCCTCCGTGC	.	90.0	5.0	81.0	0.0	.	67	.	.	Atlas-SNP
MOAP1	64112	hgsc.bcm.edu	hg19	14	93650222	93650222	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MOAP1	NM_022151	exon3	c.A366G	p.R122R	AAGAGCTCTGCTC	.	97.0	6.0	98.0	0.0	.	32	.	.	Atlas-SNP
IFI27	3429	hgsc.bcm.edu	hg19	14	94582130	94582130	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	IFI27,colon,carcinoma,0,16	IFI27	NM_005532	exon4	c.T125C	p.V42A	CAGTTGTGGCTGT	.	55.0	4.0	31.0	1.0	.	39	.	.	Atlas-SNP
PPP2R5C	5527	hgsc.bcm.edu	hg19	14	102349777	102349777	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPP2R5C	NM_001161726	exon7	c.G672A	p.E224E	TTTAGAGCTCTTT	.	91.0	15.0	94.0	0.0	.	74	.	.	Atlas-SNP
DYNC1H1	1778	hgsc.bcm.edu	hg19	14	102489191	102489191	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DYNC1H1	NM_001376	exon43	c.A8611G	p.I2871V	CGACCCATCTTGT	.	125.0	22.0	128.0	0.0	.	395	.	.	Atlas-SNP
APOPT1	84334	hgsc.bcm.edu	hg19	14	104056544	104056544	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_032374	exon5	c.T542C	p.I181T	TTGCCATCACCTT	.	83.0	4.0	78.0	0.0	.	.	.	.	Atlas-SNP
MTA1	9112	hgsc.bcm.edu	hg19	14	105916421	105916421	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	MTA1,NS,carcinoma,0,1	MTA1	NM_004689	exon5	c.C268T	p.P90S	GAGAACCCGGAAA	.	169.0	0.0	132.0	0.0	.	61	.	.	Atlas-SNP
SNURF	8926	hgsc.bcm.edu	hg19	15	25213117	25213117	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SNURF	NM_005678	exon3	c.T149C	p.V50A	AGCAAGTACCTGT	.	86.0	4.0	85.0	0.0	.	17	.	.	Atlas-SNP
ARHGAP11A	9824	hgsc.bcm.edu	hg19	15	32928096	32928096	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARHGAP11A	NM_199357	exon11	c.A1463G	p.D488G	ATGTTGATGAAAA	.	119.0	5.0	82.0	0.0	.	84	.	.	Atlas-SNP
PHGR1	644844	hgsc.bcm.edu	hg19	15	40648462	40648462	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PHGR1	NM_001145643	exon3	c.T207C	p.P69P	TCCCCCTGGCCAT	.	119.0	9.0	94.0	0.0	.	14	.	.	Atlas-SNP
RTF1	23168	hgsc.bcm.edu	hg19	15	41768645	41768645	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	RTF1,NS,carcinoma,0,1	RTF1	NM_015138	exon12	c.T1484C	p.I495T	TACAGATTGTAAA	.	64.0	3.0	45.0	0.0	.	76	.	.	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	hg19	15	42166056	42166056	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SPTBN5	NM_016642	exon25	c.T4772C	p.V1591A	AAAGTGACAGCCT	.	113.0	6.0	109.0	0.0	.	171	.	.	Atlas-SNP
TMEM62	80021	hgsc.bcm.edu	hg19	15	43446967	43446967	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMEM62	NM_024956	exon9	c.G1120C	p.V374L	ATTTTCGTACTGA	.	152.0	15.0	101.0	0.0	.	47	.	.	Atlas-SNP
DUOX2	50506	hgsc.bcm.edu	hg19	15	45386375	45386375	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DUOX2	NM_014080	exon34	c.C4620T	p.H1540H	CATGAAGTGGGCT	.	171.0	51.0	126.0	0.0	.	137	.	.	Atlas-SNP
MNS1	55329	hgsc.bcm.edu	hg19	15	56721375	56721375	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MNS1	NM_018365	exon10	c.A1412G	p.E471G	TCATCCTCTTTTT	.	113.0	7.0	88.0	0.0	.	39	.	.	Atlas-SNP
LDHAL6B	92483	hgsc.bcm.edu	hg19	15	59499975	59499975	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LDHAL6B	NM_033195	exon1	c.T836C	p.V279A	AAAATGTCCACAA	.	68.0	5.0	54.0	0.0	.	30	.	.	Atlas-SNP
CSNK1G1	53944	hgsc.bcm.edu	hg19	15	64508813	64508813	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CSNK1G1	NM_022048	exon5	c.T392C	p.L131P	TCACAGAGGTCAA	.	85.0	4.0	112.0	0.0	.	56	.	.	Atlas-SNP
NOX5	79400	hgsc.bcm.edu	hg19	15	69339868	69339868	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOX5	NM_024505	exon12	c.T1808C	p.I603T	AGAGTATCATGTA	.	79.0	5.0	74.0	0.0	.	60	.	.	Atlas-SNP
NEO1	4756	hgsc.bcm.edu	hg19	15	73470686	73470686	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NEO1	NM_001172623	exon7	c.A1209G	p.S403S	GAAATCAGATGAA	.	98.0	4.0	105.0	0.0	.	102	.	.	Atlas-SNP
GOLGA6A	342096	hgsc.bcm.edu	hg19	15	74364639	74364639	+	Missense_Mutation	SNP	G	G	C	rs200350318	bycluster	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	GOLGA6A,NS,carcinoma,0,1	GOLGA6A	NM_001038640	exon14	c.C1513G	p.Q505E	GATGTTGTCCTCC	.	58.0	5.0	13.0	1.0	.	28	.	G|0.999;C|0.001	Atlas-SNP
CCDC33	80125	hgsc.bcm.edu	hg19	15	74560701	74560701	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CCDC33	NM_025055	exon5	c.G448A	p.A150T	GGGAAAGCCGATG	.	160.0	42.0	131.0	0.0	.	160	.	.	Atlas-SNP
CLK3	1198	hgsc.bcm.edu	hg19	15	74921281	74921281	+	Splice_Site	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLK3	NM_003992	exon12	c.1206-2A>G	.	ATTTTCAGGAAGC	.	89.0	5.0	68.0	0.0	.	78	.	.	Atlas-SNP
SLC28A1	9154	hgsc.bcm.edu	hg19	15	85438313	85438313	+	Silent	SNP	C	C	T	rs2277576		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	SLC28A1_ENST00000338602,NS,carcinoma,0,1	SLC28A1	NM_201651	exon6	c.C420T	p.L140L	GTTTCTCAAGCCT	.	90.0	4.0	87.0	1.0	.	118	.	.	Atlas-SNP
AGBL1	123624	hgsc.bcm.edu	hg19	15	87089360	87089360	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AGBL1	NM_152336	exon19	c.A2675G	p.Y892C	TCAACTACAGGGT	.	98.0	4.0	86.0	0.0	.	151	.	.	Atlas-SNP
TM2D3	80213	hgsc.bcm.edu	hg19	15	102190269	102190269	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TM2D3	NM_078474	exon3	c.T265C	p.S89P	TACAGGAGAAATT	.	123.0	5.0	91.0	0.0	.	18	.	.	Atlas-SNP
RHBDF1	64285	hgsc.bcm.edu	hg19	16	109097	109097	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RHBDF1	NM_022450	exon17	c.T2023C	p.F675L	TCTGGAAGCAGAT	.	82.0	4.0	77.0	0.0	.	54	.	.	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	hg19	16	705305	705305	+	Splice_Site	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WDR90	NM_145294	exon15	c.1557-2A>G	.	CCTTGCAGGATGG	.	87.0	4.0	16.0	0.0	.	107	.	.	Atlas-SNP
MEFV	4210	hgsc.bcm.edu	hg19	16	3306370	3306370	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MEFV	NM_000243	exon1	c.T218C	p.V73A	CGCAGGACCTGCA	.	145.0	6.0	90.0	0.0	.	170	.	.	Atlas-SNP
KIAA0430	9665	hgsc.bcm.edu	hg19	16	15705583	15705583	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIAA0430	NM_001184998	exon18	c.A3483G	p.G1161G	GCCCATTCCAAGA	.	112.0	5.0	78.0	0.0	.	154	.	.	Atlas-SNP
RBBP6	5930	hgsc.bcm.edu	hg19	16	24560285	24560285	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RBBP6	NM_018703	exon3	c.A286G	p.M96V	CCAGCGATGGCAA	.	59.0	4.0	44.0	0.0	.	158	.	.	Atlas-SNP
TNRC6A	27327	hgsc.bcm.edu	hg19	16	24826473	24826473	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNRC6A	NM_014494	exon19	c.A4678C	p.I1560L	GGTGCTATTTCAA	.	212.0	60.0	178.0	0.0	.	171	.	.	Atlas-SNP
MAZ	4150	hgsc.bcm.edu	hg19	16	29821464	29821464	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	MAZ	NM_002383	exon5	c.T1346C	p.V449A	CAGCAGTAGCAGC	.	65.0	5.0	25.0	0.0	.	48	.	.	Atlas-SNP
ZNF689	115509	hgsc.bcm.edu	hg19	16	30615727	30615727	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF689	NM_138447	exon3	c.A1361G	p.E454G	GGCTTCTCCCCCG	.	168.0	7.0	71.0	0.0	.	48	.	.	Atlas-SNP
STX1B	112755	hgsc.bcm.edu	hg19	16	31012910	31012910	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	STX1B	NM_052874	exon2	c.T45C	p.D15D	TTCATCATCACTG	.	84.0	4.0	72.0	0.0	.	26	.	.	Atlas-SNP
COG4	25839	hgsc.bcm.edu	hg19	16	70514950	70514950	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COG4	NM_015386	exon19	c.A2333G	p.D778G	CGGAAGTCTATCC	.	89.0	5.0	67.0	0.0	.	64	.	.	Atlas-SNP
VAC14	55697	hgsc.bcm.edu	hg19	16	70820186	70820186	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	VAC14	NM_018052	exon2	c.T187C	p.S63P	GCTGAGACAGGGC	.	94.0	4.0	99.0	0.0	.	65	.	.	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	hg19	16	72828411	72828411	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZFHX3	NM_006885	exon9	c.A8170G	p.T2724A	GAGCAGTCTTGGC	.	98.0	4.0	98.0	0.0	.	404	.	.	Atlas-SNP
RFWD3	55159	hgsc.bcm.edu	hg19	16	74678605	74678605	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RFWD3	NM_018124	exon5	c.T821C	p.L274P	GAAGGTAGCAGAG	.	194.0	8.0	156.0	0.0	.	49	.	.	Atlas-SNP
ZNF778	197320	hgsc.bcm.edu	hg19	16	89293177	89293177	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF778	NM_001201407	exon7	c.A481G	p.S161G	GGCCTCAGCACAC	.	147.0	6.0	106.0	0.0	.	67	.	.	Atlas-SNP
FANCA	2175	hgsc.bcm.edu	hg19	16	89857909	89857909	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FANCA	NM_000135	exon14	c.A1261G	p.S421G	GGCAGCTCTCGAA	.	99.0	4.0	82.0	0.0	.	99	.	.	Atlas-SNP
GLOD4	51031	hgsc.bcm.edu	hg19	17	673366	673366	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GLOD4	NM_016080	exon7	c.A662G	p.E221G	TGGTTCTCCCTTT	.	112.0	5.0	124.0	0.0	.	12	.	.	Atlas-SNP
CAMTA2	23125	hgsc.bcm.edu	hg19	17	4883160	4883160	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CAMTA2	NM_001171167	exon9	c.A1526G	p.E509G	AAGGCCTCTCCTC	.	62.0	5.0	58.0	0.0	.	93	.	.	Atlas-SNP
ZNF594	84622	hgsc.bcm.edu	hg19	17	5085336	5085336	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF594	NM_032530	exon2	c.A2216G	p.E739G	GTTTTCTCACATT	.	95.0	5.0	98.0	0.0	.	89	.	.	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7578460	7578460	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	TP53_ENST00000545858,NS,carcinoma,0,1	TP53	NM_000546	exon5	c.T470G	p.V157G	GCGCGGACGCGGG	.	93.0	37.0	145.0	0.0	.	33396	.	.	Atlas-SNP
CHD3	1107	hgsc.bcm.edu	hg19	17	7806316	7806316	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHD3	NM_001005271	exon22	c.T3609C	p.N1203N	CATCAATCTGGCC	.	105.0	10.0	111.0	0.0	.	169	.	.	Atlas-SNP
MYH10	4628	hgsc.bcm.edu	hg19	17	8455401	8455401	+	Silent	SNP	A	A	G	rs200432425		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYH10	NM_001256012	exon9	c.T882C	p.F294F	CTGGTAAAAGATA	.	90.0	7.0	124.0	0.0	.	148	.	A|0.999;G|0.001	Atlas-SNP
WDR16	146845	hgsc.bcm.edu	hg19	17	9545098	9545098	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WDR16	NM_145054	exon13	c.T1633C	p.S545P	TCCCTGTCTGGGT	.	98.0	5.0	112.0	0.0	.	67	.	.	Atlas-SNP
MYH2	4620	hgsc.bcm.edu	hg19	17	10427784	10427784	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYH2	NM_017534	exon35	c.A5174G	p.Q1725R	CCCACCTGGGTGT	.	120.0	8.0	120.0	0.0	.	390	.	.	Atlas-SNP
RHOT1	55288	hgsc.bcm.edu	hg19	17	30535190	30535190	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RHOT1	NM_001033568	exon18	c.T1601C	p.V534A	ATGAAGTTAAACA	.	97.0	4.0	104.0	0.0	.	69	.	.	Atlas-SNP
MYO1D	4642	hgsc.bcm.edu	hg19	17	30980960	30980960	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	MYO1D,colon,carcinoma,0,1	MYO1D	NM_015194	exon19	c.A2496G	p.P832P	TGTATCTGGCTTC	.	43.0	2.0	37.0	0.0	.	93	.	.	Atlas-SNP
MYO1D	4642	hgsc.bcm.edu	hg19	17	31094666	31094666	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYO1D	NM_015194	exon7	c.T819C	p.A273A	CAGAATAGCAGCC	.	86.0	5.0	56.0	0.0	.	93	.	.	Atlas-SNP
GAS2L2	246176	hgsc.bcm.edu	hg19	17	34073357	34073357	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GAS2L2	NM_139285	exon6	c.T1159C	p.S387P	TAGATGAGGACTG	.	77.0	4.0	73.0	0.0	.	94	.	.	Atlas-SNP
FBXO47	494188	hgsc.bcm.edu	hg19	17	37101381	37101381	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FBXO47	NM_001008777	exon7	c.C625G	p.Q209E	GTTTTTGGGCACT	.	100.0	5.0	81.0	0.0	.	34	.	.	Atlas-SNP
KRT28	162605	hgsc.bcm.edu	hg19	17	38948685	38948685	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KRT28	NM_181535	exon8	c.T1389C	p.P463P	CTAGAAAGGAACC	.	93.0	4.0	90.0	0.0	.	65	.	.	Atlas-SNP
KRT38	8687	hgsc.bcm.edu	hg19	17	39595478	39595478	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KRT38	NM_006771	exon3	c.T709C	p.S237P	TGAGGGAGAGCTG	.	97.0	4.0	97.0	0.0	.	63	.	.	Atlas-SNP
STAT5A	6776	hgsc.bcm.edu	hg19	17	40456369	40456369	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	STAT5A	NM_003152	exon11	c.T1179C	p.S393S	GTGCAGTGGTGAG	.	85.0	4.0	86.0	0.0	.	49	.	.	Atlas-SNP
EFCAB13	124989	hgsc.bcm.edu	hg19	17	45451902	45451902	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_152347	exon12	c.A942G	p.G314G	AGCAGGATGCTAT	.	92.0	4.0	76.0	0.0	.	.	.	.	Atlas-SNP
OR4D1	26689	hgsc.bcm.edu	hg19	17	56232912	56232912	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR4D1	NM_012374	exon1	c.T398C	p.V133A	GGTATGTCACCAT	.	110.0	7.0	89.0	0.0	.	48	.	.	Atlas-SNP
RAD51C	5889	hgsc.bcm.edu	hg19	17	56798130	56798130	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RAD51C	NM_058216	exon6	c.A861G	p.T287T	GATGACAACAAAG	.	65.0	4.0	60.0	0.0	.	39	.	.	Atlas-SNP
PTRH2	51651	hgsc.bcm.edu	hg19	17	57774925	57774925	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PTRH2	NM_016077	exon2	c.A415G	p.T139A	TTACAGTCAGTCC	.	210.0	9.0	162.0	0.0	.	8	.	.	Atlas-SNP
MRC2	9902	hgsc.bcm.edu	hg19	17	60743521	60743521	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MRC2	NM_006039	exon3	c.A587G	p.Q196R	ACAACCAGTGGTT	.	88.0	4.0	94.0	0.0	.	126	.	.	Atlas-SNP
BPTF	2186	hgsc.bcm.edu	hg19	17	65871699	65871699	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BPTF	NM_004459	exon5	c.A1892G	p.N631S	AAGGTAACTCTGT	.	52.0	4.0	39.0	0.0	.	415	.	.	Atlas-SNP
AMZ2	51321	hgsc.bcm.edu	hg19	17	66251989	66251989	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AMZ2	NM_001033572	exon7	c.T899C	p.V300A	GTGCTGTTGGCTT	.	86.0	4.0	80.0	0.0	.	15	.	.	Atlas-SNP
SRP68	6730	hgsc.bcm.edu	hg19	17	74044023	74044023	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SRP68	NM_014230	exon10	c.A1106G	p.E369G	CCTGGCTCTCCTT	.	189.0	8.0	198.0	0.0	.	61	.	.	Atlas-SNP
PPP1R27	116729	hgsc.bcm.edu	hg19	17	79792500	79792500	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001007533	exon2	c.T220C	p.S74P	TTCCAGAGAGCAC	.	96.0	4.0	122.0	0.0	.	.	.	.	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	hg19	18	7034631	7034631	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LAMA1	NM_005559	exon14	c.A1898G	p.E633G	AGGTACTCTTCAT	.	144.0	6.0	114.0	0.0	.	458	.	.	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	hg19	18	7044819	7044819	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LAMA1	NM_005559	exon7	c.A878G	p.E293G	TTATGCTCACATT	.	106.0	5.0	120.0	0.0	.	458	.	.	Atlas-SNP
DSC3	1825	hgsc.bcm.edu	hg19	18	28611062	28611062	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	DSC3_ENST00000434452,right_lower_lobe,carcinoma,0,2	DSC3	NM_024423	exon3	c.G231A	p.G77G	CACTGACCCATCA	.	78.0	0.0	59.0	0.0	.	225	.	.	Atlas-SNP
PIK3C3	5289	hgsc.bcm.edu	hg19	18	39542519	39542519	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PIK3C3	NM_002647	exon3	c.T323C	p.L108P	TGGCCCTCACCAT	.	124.0	5.0	95.0	0.0	.	138	.	.	Atlas-SNP
LOXHD1	125336	hgsc.bcm.edu	hg19	18	44181198	44181198	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LOXHD1	NM_144612	exon8	c.A1116G	p.R372R	CCAGCCTCTGTTG	.	82.0	5.0	84.0	0.0	.	367	.	.	Atlas-SNP
SERPINB2	5055	hgsc.bcm.edu	hg19	18	61569003	61569003	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SERPINB2	NM_002575	exon6	c.T565C	p.S189P	GAAGGTTCTGTAG	.	80.0	4.0	75.0	0.0	.	63	.	.	Atlas-SNP
GALR1	2587	hgsc.bcm.edu	hg19	18	74962810	74962810	+	Silent	SNP	G	G	A	rs5375	bycluster;byfrequency;byhapmap;by1000genomes;alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	GALR1,NS,carcinoma,0,1	GALR1	NM_001480	exon1	c.G306A	p.V102V	CTGGGTGCTGGGC	.	181.0	59.0	127.0	0.0	.	53	.	G|0.936;T|0.064	Atlas-SNP
RBFA	79863	hgsc.bcm.edu	hg19	18	77796689	77796689	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RBFA	NM_024805	exon2	c.T180C	p.S60S	TGAAAGTCCTTCC	.	68.0	4.0	45.0	0.0	.	27	.	.	Atlas-SNP
MED16	10025	hgsc.bcm.edu	hg19	19	879947	879947	+	Missense_Mutation	SNP	C	C	T	rs200085016		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	MED16,NS,carcinoma,0,1	MED16	NM_005481	exon8	c.G1343A	p.S448N	CCGTGGCTGTCAA	.	151.0	10.0	110.0	0.0	.	61	.	.	Atlas-SNP
UBXN6	80700	hgsc.bcm.edu	hg19	19	4453507	4453507	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UBXN6	NM_025241	exon3	c.T260C	p.L87P	GCTTGAAGTTCCT	.	53.0	4.0	73.0	0.0	.	27	.	.	Atlas-SNP
ACER1	125981	hgsc.bcm.edu	hg19	19	6307247	6307247	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ACER1	NM_133492	exon5	c.T543C	p.A181A	AGCAACAGCCCAT	.	72.0	4.0	64.0	0.0	.	38	.	.	Atlas-SNP
C3	718	hgsc.bcm.edu	hg19	19	6718129	6718129	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C3	NM_000064	exon4	c.C480T	p.G160G	CGTCCGGCCCACG	.	96.0	31.0	91.0	0.0	.	192	.	.	Atlas-SNP
XAB2	56949	hgsc.bcm.edu	hg19	19	7684695	7684695	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	XAB2	NM_020196	exon18	c.A2444G	p.N815S	TCGGGGTTGACCT	.	100.0	4.0	87.0	0.0	.	69	.	.	Atlas-SNP
RGL3	57139	hgsc.bcm.edu	hg19	19	11517507	11517507	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RGL3	NM_001035223	exon6	c.A671G	p.D224G	GAAGAGTCTGGGT	.	70.0	4.0	64.0	0.0	.	100	.	.	Atlas-SNP
RGL3	57139	hgsc.bcm.edu	hg19	19	11526669	11526669	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RGL3	NM_001035223	exon5	c.A581G	p.D194G	AAAAAATCTTCCA	.	113.0	5.0	84.0	0.0	.	100	.	.	Atlas-SNP
ZNF44	51710	hgsc.bcm.edu	hg19	19	12384103	12384103	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF44	NM_001164276	exon5	c.A1111G	p.S371G	GAAAGCTTCCAAG	.	95.0	4.0	62.0	0.0	.	55	.	.	Atlas-SNP
ZNF799	90576	hgsc.bcm.edu	hg19	19	12502459	12502459	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF799	NM_001080821	exon4	c.A753C	p.K251N	ATACAGTTTCTCC	.	79.0	4.0	62.0	0.0	.	111	.	.	Atlas-SNP
OR7A10	390892	hgsc.bcm.edu	hg19	19	14952035	14952035	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR7A10	NM_001005190	exon1	c.T655G	p.S219A	TCTTAGAGTAAGA	.	65.0	15.0	43.0	0.0	.	33	.	.	Atlas-SNP
SLC1A6	6511	hgsc.bcm.edu	hg19	19	15065025	15065025	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC1A6	NM_005071	exon7	c.T1286C	p.L429P	TCGTAGAGGGCAG	.	115.0	5.0	105.0	0.0	.	111	.	.	Atlas-SNP
CYP4F2	8529	hgsc.bcm.edu	hg19	19	16008363	16008363	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CYP4F2	NM_001082	exon2	c.T59C	p.L20P	AGGAGCAGCCAAG	.	94.0	5.0	74.0	0.0	.	97	.	.	Atlas-SNP
OCEL1	79629	hgsc.bcm.edu	hg19	19	17337947	17337947	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OCEL1	NM_024578	exon3	c.C391T	p.P131S	AAGAAGCCTATTG	.	92.0	4.0	105.0	0.0	.	20	.	.	Atlas-SNP
BABAM1	29086	hgsc.bcm.edu	hg19	19	17389796	17389796	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BABAM1	NM_014173	exon9	c.A929G	p.H310R	AGAGCCATGCTTC	.	94.0	4.0	95.0	0.0	.	14	.	.	Atlas-SNP
GMIP	51291	hgsc.bcm.edu	hg19	19	19751152	19751152	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GMIP	NM_016573	exon6	c.A382G	p.S128G	TGGTGCTCTTAGC	.	92.0	4.0	90.0	0.0	.	55	.	.	Atlas-SNP
ZNF14	7561	hgsc.bcm.edu	hg19	19	19823792	19823792	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF14	NM_021030	exon4	c.G298A	p.A100T	GTTTTGCTCCAGT	.	116.0	6.0	78.0	0.0	.	89	.	.	Atlas-SNP
SLC7A9	11136	hgsc.bcm.edu	hg19	19	33353026	33353026	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC7A9	NM_001243036	exon6	c.A702G	p.G234G	TCACCATCCATCA	.	105.0	6.0	70.0	0.0	.	78	.	.	Atlas-SNP
ZNF599	148103	hgsc.bcm.edu	hg19	19	35250292	35250292	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF599	NM_001007248	exon4	c.A1414G	p.T472A	TGTGGGTCCTATT	.	128.0	6.0	94.0	0.0	.	72	.	.	Atlas-SNP
LGI4	163175	hgsc.bcm.edu	hg19	19	35617456	35617456	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LGI4	NM_139284	exon8	c.G1017A	p.A339A	GCTGCCCGCCTTG	.	7.0	6.0	2.0	0.0	.	32	.	.	Atlas-SNP
ZBTB32	27033	hgsc.bcm.edu	hg19	19	36205963	36205963	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZBTB32	NM_014383	exon2	c.T435C	p.P145P	GGACCCTGGAGAG	.	67.0	4.0	47.0	0.0	.	33	.	.	Atlas-SNP
MLL4	8085	hgsc.bcm.edu	hg19	19	36214631	36214631	+	Splice_Site	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MLL4	NM_014727	exon8	c.3059-2C>A	.	TTCCCGCAGCCGG	.	65.0	4.0	35.0	0.0	.	229	.	.	Atlas-SNP
MLL4	8085	hgsc.bcm.edu	hg19	19	36214634	36214634	+	Silent	SNP	C	C	G	rs373624638	bycluster	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MLL4	NM_014727	exon8	c.C3060G	p.G1020G	CCGCAGCCGGACG	.	67.0	6.0	34.0	0.0	.	229	.	.	Atlas-SNP
ARHGAP33	115703	hgsc.bcm.edu	hg19	19	36273373	36273373	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARHGAP33	NM_052948	exon13	c.A1184G	p.E395G	TCCGAGAGCTTCC	.	93.0	4.0	70.0	0.0	.	102	.	.	Atlas-SNP
ZFP82	284406	hgsc.bcm.edu	hg19	19	36883842	36883842	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZFP82	NM_133466	exon5	c.T1400C	p.L467P	TGATGTAGAGTAA	.	92.0	4.0	96.0	0.0	.	71	.	.	Atlas-SNP
CATSPERG	57828	hgsc.bcm.edu	hg19	19	38828049	38828049	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CATSPERG	NM_021185	exon2	c.A175G	p.S59G	GGCGAGAGTGGTG	.	98.0	5.0	83.0	0.0	.	121	.	.	Atlas-SNP
ACTN4	81	hgsc.bcm.edu	hg19	19	39191331	39191331	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ACTN4	NM_004924	exon2	c.T254C	p.M85T	AGCTCATGCTGCT	.	122.0	5.0	91.0	0.0	.	69	.	.	Atlas-SNP
SHKBP1	92799	hgsc.bcm.edu	hg19	19	41095066	41095066	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SHKBP1	NM_138392	exon15	c.T1571C	p.L524P	TGCGTCTCTCATC	.	128.0	6.0	89.0	0.0	.	68	.	.	Atlas-SNP
ADCK4	79934	hgsc.bcm.edu	hg19	19	41220002	41220002	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADCK4	NM_001142555	exon4	c.T259C	p.S87P	TGCGGGAGGCAGG	.	137.0	6.0	81.0	0.0	.	92	.	.	Atlas-SNP
MEGF8	1954	hgsc.bcm.edu	hg19	19	42840481	42840481	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MEGF8	NM_001271938	exon6	c.C1227T	p.H409H	TGGACACCGGCCC	.	53.0	4.0	43.0	0.0	.	358	.	.	Atlas-SNP
ZNF221	7638	hgsc.bcm.edu	hg19	19	44471324	44471324	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	ZNF221	NM_013359	exon6	c.G1670A	p.G557E	TCCACGGGGGAGA	.	86.0	0.0	64.0	0.0	.	59	.	.	Atlas-SNP
ZNF227	7770	hgsc.bcm.edu	hg19	19	44739699	44739699	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF227	NM_182490	exon6	c.A1116G	p.R372R	TCAGAGAGTCCAC	.	32.0	4.0	41.0	0.0	.	62	.	.	Atlas-SNP
ZC3H4	23211	hgsc.bcm.edu	hg19	19	47570722	47570722	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZC3H4	NM_015168	exon15	c.A2803G	p.K935E	CGGCCTTCTCCCG	.	95.0	4.0	79.0	0.0	.	96	.	.	Atlas-SNP
NR1H2	7376	hgsc.bcm.edu	hg19	19	50881820	50881820	+	Missense_Mutation	SNP	A	A	C	rs78398331		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	NR1H2	NM_007121	exon6	c.A514C	p.K172Q	ATTCGGAAACAGC	.	92.0	4.0	85.0	2.0	.	47	.	.	Atlas-SNP
SIGLEC12	89858	hgsc.bcm.edu	hg19	19	52004796	52004796	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SIGLEC12	NM_053003	exon1	c.C192A	p.F64L	TGCCCGGAACCAG	.	155.0	14.0	112.0	0.0	.	243	.	.	Atlas-SNP
SIGLEC12	89858	hgsc.bcm.edu	hg19	19	52004797	52004797	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SIGLEC12	NM_053003	exon1	c.T191C	p.F64S	GCCCGGAACCAGT	.	155.0	9.0	114.0	0.0	.	243	.	.	Atlas-SNP
ZNF665	79788	hgsc.bcm.edu	hg19	19	53686151	53686151	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF665	NM_024733	exon2	c.A1G	p.M1V	GAGCCATCCCTGA	.	50.0	4.0	16.0	0.0	.	136	.	.	Atlas-SNP
ZNF677	342926	hgsc.bcm.edu	hg19	19	53740870	53740870	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF677	NM_182609	exon5	c.T1110C	p.T370T	CTCTCCAGTATGA	.	112.0	5.0	72.0	0.0	.	94	.	.	Atlas-SNP
ZNF667	63934	hgsc.bcm.edu	hg19	19	56953864	56953864	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	ZNF667,caecum,carcinoma,0,1	ZNF667	NM_022103	exon5	c.C500G	p.T167R	TCTCCTGTATGAA	.	164.0	0.0	112.0	0.0	.	95	.	.	Atlas-SNP
ZFP28	140612	hgsc.bcm.edu	hg19	19	57066048	57066048	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZFP28	NM_020828	exon8	c.C1894T	p.L632F	TCTCAGCTTGCCA	.	96.0	4.0	80.0	0.0	.	99	.	.	Atlas-SNP
ZNF134	7693	hgsc.bcm.edu	hg19	19	58132374	58132374	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF134	NM_003435	exon3	c.T887C	p.V296A	GGAAAGTCTTCAG	.	85.0	4.0	72.0	0.0	.	34	.	.	Atlas-SNP
ZNF8	7554	hgsc.bcm.edu	hg19	19	58797546	58797546	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF8	NM_021089	exon3	c.A264G	p.R88R	TGAGAGAGGAACC	.	87.0	4.0	85.0	0.0	.	60	.	.	Atlas-SNP
ZNF132	7691	hgsc.bcm.edu	hg19	19	58945615	58945615	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF132	NM_003433	exon3	c.A1196G	p.Q399R	CTTACCTGTGTGT	.	70.0	4.0	43.0	0.0	.	56	.	.	Atlas-SNP
HSPA12B	116835	hgsc.bcm.edu	hg19	20	3723057	3723057	+	Splice_Site	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HSPA12B	NM_001197327	exon4	c.266+2T>C	.	ATGAGGTGAGGTC	.	84.0	4.0	62.0	0.0	.	43	.	.	Atlas-SNP
PROKR2	128674	hgsc.bcm.edu	hg19	20	5283258	5283258	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PROKR2	NM_144773	exon2	c.A583C	p.T195P	GGACCGTTTCTGT	.	173.0	7.0	145.0	0.0	.	90	.	.	Atlas-SNP
KIF16B	55614	hgsc.bcm.edu	hg19	20	16351274	16351274	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIF16B	NM_001199866	exon22	c.A3455G	p.E1152G	AGTTTCTCATTAT	.	72.0	4.0	42.0	0.0	.	305	.	.	Atlas-SNP
ZNF341	84905	hgsc.bcm.edu	hg19	20	32346565	32346565	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF341	NM_032819	exon7	c.T960C	p.C320C	ATACTGTGACAAG	.	89.0	4.0	68.0	0.0	.	73	.	.	Atlas-SNP
KIAA1755	85449	hgsc.bcm.edu	hg19	20	36842112	36842112	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIAA1755	NM_001029864	exon14	c.A2935G	p.M979V	GGGCCATCAGGTC	.	100.0	4.0	65.0	0.0	.	145	.	.	Atlas-SNP
LBP	3929	hgsc.bcm.edu	hg19	20	36989407	36989407	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LBP	NM_004139	exon6	c.T638C	p.L213P	CTTATCTCCAAAC	.	131.0	6.0	95.0	0.0	.	60	.	.	Atlas-SNP
TMPRSS15	5651	hgsc.bcm.edu	hg19	21	19770597	19770597	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMPRSS15	NM_002772	exon2	c.A195G	p.T65T	TCCGGATGTTATT	.	71.0	23.0	44.0	0.0	.	189	.	.	Atlas-SNP
HUNK	30811	hgsc.bcm.edu	hg19	21	33312481	33312481	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HUNK	NM_014586	exon3	c.T559C	p.L187L	AGAGACTTGAAGA	.	50.0	4.0	57.0	0.0	.	74	.	.	Atlas-SNP
URB1	9875	hgsc.bcm.edu	hg19	21	33688875	33688875	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	URB1	NM_014825	exon38	c.A6536G	p.Q2179R	ACCAGCTGCAGCA	.	84.0	4.0	69.0	0.0	.	176	.	.	Atlas-SNP
GART	2618	hgsc.bcm.edu	hg19	21	34882122	34882122	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,5	GART	NM_001136005	exon18	c.A2420G	p.K807R	CTGGCCTTTTTTT	.	69.0	3.0	62.0	1.0	.	81	.	.	Atlas-SNP
RRP1	8568	hgsc.bcm.edu	hg19	21	45222190	45222190	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RRP1	NM_003683	exon12	c.T1045C	p.C349R	AAGGCCTGCAGGC	.	77.0	4.0	90.0	0.0	.	23	.	.	Atlas-SNP
PCBP3	54039	hgsc.bcm.edu	hg19	21	47320946	47320946	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCBP3	NM_001130141	exon5	c.C258A	p.C86X	AAACTGCCCAGAG	.	89.0	12.0	93.0	0.0	.	82	.	.	Atlas-SNP
MICAL3	57553	hgsc.bcm.edu	hg19	22	18310443	18310443	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MICAL3	NM_015241	exon22	c.A3160G	p.M1054V	GCGCCATCCTCTC	.	60.0	5.0	86.0	0.0	.	53	.	.	Atlas-SNP
CLTCL1	8218	hgsc.bcm.edu	hg19	22	19189001	19189001	+	Nonsense_Mutation	SNP	C	C	A	rs374660081		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLTCL1	NM_001835	exon23	c.G3604T	p.G1202X	GGTCTCCAACTAC	.	102.0	7.0	85.0	0.0	.	115	.	.	Atlas-SNP
ZDHHC8	29801	hgsc.bcm.edu	hg19	22	20131139	20131139	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZDHHC8	NM_001185024	exon10	c.T1986C	p.S662S	CAGCAGTGGCTCA	.	88.0	4.0	13.0	0.0	.	77	.	.	Atlas-SNP
NIPSNAP1	8508	hgsc.bcm.edu	hg19	22	29957568	29957568	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NIPSNAP1	NM_003634	exon6	c.A506G	p.E169G	CTGAACTCGAGGA	.	75.0	5.0	72.0	0.0	.	17	.	.	Atlas-SNP
SYN3	8224	hgsc.bcm.edu	hg19	22	32914045	32914045	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SYN3	NM_003490	exon12	c.C1595T	p.P532L	GGATGGGGTGGTG	.	90.0	4.0	87.0	0.0	.	77	.	.	Atlas-SNP
ST13	6767	hgsc.bcm.edu	hg19	22	41244327	41244327	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ST13	NM_003932	exon3	c.A215G	p.D72G	GGTTCGTCTGCCT	.	76.0	4.0	74.0	0.0	.	16	.	.	Atlas-SNP
GTSE1	51512	hgsc.bcm.edu	hg19	22	46725998	46725998	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GTSE1	NM_016426	exon12	c.A2191G	p.N731D	AAGGAGAACGTGG	.	90.0	4.0	77.0	0.0	.	100	.	.	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	hg19	22	46776815	46776815	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	CELSR1,NS,carcinoma,0,1	CELSR1	NM_014246	exon22	c.A7126G	p.S2376G	GCGTGCTCACCAT	.	72.0	3.0	70.0	1.0	.	242	.	.	Atlas-SNP
TLR8	51311	hgsc.bcm.edu	hg19	X	12938331	12938331	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TLR8	NM_138636	exon2	c.T1172C	p.M391T	CCCTGATGCAGCT	.	79.0	4.0	42.0	0.0	.	134	.	.	Atlas-SNP
FANCB	2187	hgsc.bcm.edu	hg19	X	14863048	14863048	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FANCB	NM_152633	exon7	c.A1857G	p.R619R	AAAAACTCTGCCA	.	88.0	4.0	60.0	0.0	.	78	.	.	Atlas-SNP
PHKA2	5256	hgsc.bcm.edu	hg19	X	18949832	18949832	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PHKA2	NM_000292	exon12	c.A1172G	p.D391G	ACTCGGTCTACTG	.	88.0	4.0	89.0	0.0	.	122	.	.	Atlas-SNP
DDX53	168400	hgsc.bcm.edu	hg19	X	23018954	23018954	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DDX53	NM_182699	exon1	c.A780G	p.I260M	AGGAATAGATCTT	.	100.0	4.0	58.0	0.0	.	76	.	.	Atlas-SNP
PTCHD1	139411	hgsc.bcm.edu	hg19	X	23411607	23411607	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PTCHD1	NM_173495	exon3	c.A1972G	p.R658G	ACAAACAGAGAAG	.	86.0	4.0	54.0	0.0	.	213	.	.	Atlas-SNP
SYTL5	94122	hgsc.bcm.edu	hg19	X	37981401	37981401	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SYTL5	NM_001163334	exon15	c.T1840C	p.F614L	GAAGTGTTCATCA	.	97.0	4.0	80.0	0.0	.	72	.	.	Atlas-SNP
RBM3	5935	hgsc.bcm.edu	hg19	X	48434040	48434040	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RBM3	NM_006743	exon3	c.A195G	p.R65R	CATGAGAGCCATG	.	99.0	4.0	92.0	0.0	.	20	.	.	Atlas-SNP
SHROOM4	57477	hgsc.bcm.edu	hg19	X	50351077	50351077	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SHROOM4	NM_020717	exon6	c.A3065G	p.D1022G	AGGAGGTCAAGAG	.	186.0	9.0	119.0	0.0	.	171	.	.	Atlas-SNP
CENPI	2491	hgsc.bcm.edu	hg19	X	100357276	100357276	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CENPI	NM_006733	exon3	c.T240C	p.A80A	TAAAGCTTCACAG	.	84.0	4.0	73.0	0.0	.	70	.	.	Atlas-SNP
TCEAL6	158931	hgsc.bcm.edu	hg19	X	101395773	101395773	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TCEAL6	NM_001006938	exon3	c.C531A	p.D177E	CCCGTTGTCCCCT	.	141.0	10.0	68.0	0.0	.	27	.	.	Atlas-SNP
TCEAL6	158931	hgsc.bcm.edu	hg19	X	101395778	101395778	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TCEAL6	NM_001006938	exon3	c.G526A	p.G176R	TGTCCCCTTGGGC	.	138.0	18.0	65.0	0.0	.	27	.	.	Atlas-SNP
GRIA3	2892	hgsc.bcm.edu	hg19	X	122336600	122336600	+	Silent	SNP	T	T	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GRIA3	NM_001256743	exon3	c.T381G	p.G127G	ACCAGGTGGGCCC	.	64.0	5.0	58.0	0.0	.	386	.	.	Atlas-SNP
GRIA3	2892	hgsc.bcm.edu	hg19	X	122336608	122336608	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GRIA3	NM_001256743	exon3	c.C389G	p.A130G	GGCCCGCCAAAAC	.	52.0	5.0	52.0	0.0	.	386	.	.	Atlas-SNP
STAG2	10735	hgsc.bcm.edu	hg19	X	123217394	123217394	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	STAG2	NM_001042749	exon29	c.A3048G	p.R1016R	CAAAAGAACAGTG	.	73.0	4.0	51.0	0.0	.	309	.	.	Atlas-SNP
AIFM1	9131	hgsc.bcm.edu	hg19	X	129290533	129290533	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AIFM1	NM_001130847	exon2	c.A151G	p.T51A	GTCTTGTCATCTG	.	72.0	4.0	87.0	0.0	.	75	.	.	Atlas-SNP
ABCD1	215	hgsc.bcm.edu	hg19	X	153009116	153009116	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ABCD1	NM_000033	exon10	c.A2165G	p.E722G	TGGGCGAGGCCGT	.	63.0	4.0	24.0	0.0	.	59	.	.	Atlas-SNP
PDZD4	57595	hgsc.bcm.edu	hg19	X	153070036	153070036	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PDZD4	NM_032512	exon8	c.T1082C	p.L361P	ATCTCCAGGAGCT	.	106.0	5.0	84.0	0.0	.	67	.	.	Atlas-SNP
ND6	0	hgsc.bcm.edu	hg19	MT	14645	14645	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	ENST00000361681	exon1	c.T29C	p.V10A	AAACCCACACTCA	.	72.0	4.0	46.0	0.0	.	.	.	.	Atlas-SNP
CYTB	0	hgsc.bcm.edu	hg19	MT	15591	15591	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	ENST00000361789	exon1	c.G845T	p.R282L	TTCTCCGATCCGT	.	15.0	7.0	15.0	0.0	.	.	.	.	Atlas-SNP
PTPN20A	653129	hgsc.bcm.edu	hg19	10	46568210	46568210	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001042389	exon7	c.614delG	p.S205fs	.	.	181.0	12.0	194.0	0.0	.	.	.	.	Atlas-INDEL
ZNF562	54811	hgsc.bcm.edu	hg19	19	9767254	9767254	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF562	NM_001130032	exon5	c.318delG	p.L106fs	.	.	165.0	11.0	169.0	0.0	.	72	.	.	Atlas-INDEL
ASB18	401036	hgsc.bcm.edu	hg19	2	237103580	237103580	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ASB18	NM_212556	exon6	c.1337delT	p.L446fs	.	.	138.0	10.0	130.0	0.0	.	34	.	.	Atlas-INDEL
GRIA3	2892	hgsc.bcm.edu	hg19	X	122528895	122528895	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GRIA3	NM_000828	exon6	c.826delG	p.E276fs	.	.	185.0	12.0	144.0	0.0	.	386	.	.	Atlas-INDEL
USP28	57646	hgsc.bcm.edu	hg19	11	113704215	113704215	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	USP28	NM_020886	exon7	c.687delT	p.N229fs	.	.	148.0	10.0	133.0	0.0	.	135	.	.	Atlas-INDEL
SETBP1	26040	hgsc.bcm.edu	hg19	18	42456590	42456590	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SETBP1	NM_001130110	exon4	c.600delC	p.F200fs	.	.	173.0	11.0	164.0	0.0	.	577	.	.	Atlas-INDEL
MORN1	79906	hgsc.bcm.edu	hg19	1	2268183	2268183	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MORN1	NM_024848	exon11	c.1144delT	p.F382fs	.	.	151.0	11.0	142.0	0.0	.	38	.	.	Atlas-INDEL
ISG20L2	81875	hgsc.bcm.edu	hg19	1	156697122	156697122	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ISG20L2	NM_030980	exon1	c.324delG	p.K108fs	.	.	180.0	13.0	89.0	0.0	.	43	.	.	Atlas-INDEL
EXOC2	55770	hgsc.bcm.edu	hg19	6	556513	556513	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EXOC2	NM_018303	exon18	c.1904delT	p.V635fs	.	.	243.0	15.0	180.0	0.0	.	81	.	.	Atlas-INDEL
ACSS3	79611	hgsc.bcm.edu	hg19	12	81647384	81647384	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ACSS3	NM_024560	exon15	c.1929delC	p.P643fs	.	.	108.0	10.0	93.0	0.0	.	118	.	.	Atlas-INDEL
PCDHAC1	56135	hgsc.bcm.edu	hg19	5	140306876	140306876	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCDHAC1	NM_031882	exon1	c.398delT	p.I133fs	.	.	180.0	11.0	145.0	0.0	.	141	.	.	Atlas-INDEL
CNOT6L	246175	hgsc.bcm.edu	hg19	4	78697453	78697453	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CNOT6L	NM_144571	exon2	c.100delT	p.S34fs	.	.	128.0	11.0	123.0	0.0	.	57	.	.	Atlas-INDEL
ANKAR	150709	hgsc.bcm.edu	hg19	2	190611122	190611122	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANKAR	NM_144708	exon23	c.4073delG	p.R1358fs	.	.	158.0	10.0	147.0	0.0	.	184	.	.	Atlas-INDEL
GCM2	9247	hgsc.bcm.edu	hg19	6	10876681	10876681	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GCM2	NM_004752	exon3	c.454delC	p.Q152fs	.	.	177.0	14.0	98.0	0.0	.	81	.	.	Atlas-INDEL
PIF1	80119	hgsc.bcm.edu	hg19	15	65108937	65108937	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	PIF1_ENST00000268043,NS,carcinoma,0,1	PIF1	NM_025049	exon12	c.1703delC	p.S568fs	.	.	209.0	13.0	180.0	0.0	.	43	.	.	Atlas-INDEL
HNRNPUL1	11100	hgsc.bcm.edu	hg19	19	41811722	41811722	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HNRNPUL1	NM_007040	exon14	c.2403delA	p.P801fs	.	.	112.0	10.0	98.0	0.0	.	73	.	.	Atlas-INDEL
HELLS	3070	hgsc.bcm.edu	hg19	10	96348094	96348094	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HELLS	NM_018063	exon13	c.1434delC	p.I478fs	.	.	130.0	10.0	135.0	0.0	.	63	.	.	Atlas-INDEL
ANKRD20A1	84210	hgsc.bcm.edu	hg19	9	67934789	67934789	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANKRD20A1	NM_032250	exon4	c.558delG	p.L186fs	.	.	193.0	12.0	198.0	0.0	.	16	.	.	Atlas-INDEL
EGFR	1956	hgsc.bcm.edu	hg19	7	55220290	55220290	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EGFR	NM_005228	exon6	c.679delT	p.S227fs	.	.	180.0	11.0	157.0	0.0	.	20426	.	.	Atlas-INDEL
SAMD11	148398	hgsc.bcm.edu	hg19	1	874450	874450	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SAMD11	NM_152486	exon6	c.460delT	p.S154fs	.	.	176.0	12.0	157.0	0.0	.	34	.	.	Atlas-INDEL
IDI2	91734	hgsc.bcm.edu	hg19	10	1065633	1065633	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IDI2	NM_033261	exon5	c.509delG	p.S170fs	.	.	183.0	11.0	180.0	0.0	.	20	.	.	Atlas-INDEL
TMEFF2	23671	hgsc.bcm.edu	hg19	2	192818525	192818525	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMEFF2	NM_016192	exon9	c.909delG	p.K303fs	.	.	138.0	11.0	113.0	0.0	.	54	.	.	Atlas-INDEL
UNC13C	440279	hgsc.bcm.edu	hg19	15	54626040	54626040	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UNC13C	NM_001080534	exon14	c.4569delC	p.T1523fs	.	.	165.0	11.0	113.0	0.0	.	674	.	.	Atlas-INDEL
TACR2	6865	hgsc.bcm.edu	hg19	10	71164684	71164684	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TACR2	NM_001057	exon5	c.1096delT	p.S366fs	.	.	165.0	10.0	132.0	0.0	.	37	.	.	Atlas-INDEL
KCNH5	27133	hgsc.bcm.edu	hg19	14	63174303	63174303	+	Frame_Shift_Del	DEL	G	G	-	rs35940222		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	KCNH5,NS,carcinoma,-1,1	KCNH5	NM_139318	exon11	c.2891delA	p.Q964fs	.	.	159.0	11.0	147.0	0.0	.	320	.	.	Atlas-INDEL
KIF24	347240	hgsc.bcm.edu	hg19	9	34306393	34306393	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIF24	NM_194313	exon3	c.671delT	p.I224fs	.	.	207.0	13.0	192.0	0.0	.	64	.	.	Atlas-INDEL
ZC3H7A	29066	hgsc.bcm.edu	hg19	16	11868316	11868316	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZC3H7A	NM_014153	exon9	c.680delC	p.S227fs	.	.	112.0	11.0	84.0	0.0	.	72	.	.	Atlas-INDEL
MMRN1	22915	hgsc.bcm.edu	hg19	4	90816715	90816715	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MMRN1	NM_007351	exon1	c.592delC	p.Q198fs	.	.	76.0	11.0	73.0	0.0	.	174	.	.	Atlas-INDEL
ZNF630	57232	hgsc.bcm.edu	hg19	X	47919479	47919479	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF630	NM_001037735	exon5	c.353delT	p.I118fs	.	.	176.0	11.0	126.0	0.0	.	71	.	.	Atlas-INDEL
NEK11	79858	hgsc.bcm.edu	hg19	3	130887702	130887702	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NEK11	NM_024800	exon13	c.1204delG	p.E402fs	.	.	160.0	10.0	101.0	0.0	.	76	.	.	Atlas-INDEL
DGCR8	54487	hgsc.bcm.edu	hg19	22	20094164	20094164	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DGCR8	NM_022720	exon11	c.1938delG	p.G646fs	.	.	230.0	14.0	195.0	0.0	.	53	.	.	Atlas-INDEL
BAI2	576	hgsc.bcm.edu	hg19	1	32196841	32196841	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BAI2	NM_001703	exon29	c.3941delA	p.E1314fs	.	.	178.0	12.0	182.0	0.0	.	128	.	.	Atlas-INDEL
DCAF8L1	139425	hgsc.bcm.edu	hg19	X	27997984	27997984	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DCAF8L1	NM_001017930	exon1	c.1469delA	p.H490fs	.	.	166.0	10.0	141.0	0.0	.	121	.	.	Atlas-INDEL
DFNA5	1687	hgsc.bcm.edu	hg19	7	24738821	24738821	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DFNA5	NM_001127453	exon10	c.1316delT	p.L439fs	.	.	306.0	22.0	227.0	0.0	.	51	.	.	Atlas-INDEL
DTNBP1	84062	hgsc.bcm.edu	hg19	6	15615504	15615504	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DTNBP1	NM_183040	exon6	c.483delT	p.N161fs	.	.	251.0	18.0	161.0	0.0	.	56	.	.	Atlas-INDEL
TAF1	6872	hgsc.bcm.edu	hg19	X	70597472	70597472	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TAF1	NM_004606	exon6	c.793delC	p.L265fs	.	.	159.0	10.0	113.0	0.0	.	439	.	.	Atlas-INDEL
HS3ST4	9951	hgsc.bcm.edu	hg19	16	25704315	25704315	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HS3ST4	NM_006040	exon1	c.576delT	p.Y192X	.	.	146.0	10.0	94.0	0.0	.	120	.	.	Atlas-INDEL
LONP2	83752	hgsc.bcm.edu	hg19	16	48295434	48295434	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LONP2	NM_031490	exon5	c.822delG	p.E274fs	.	.	171.0	11.0	127.0	0.0	.	63	.	.	Atlas-INDEL
TPBG	7162	hgsc.bcm.edu	hg19	6	83075723	83075723	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TPBG	NM_001166392	exon2	c.1044delT	p.L348fs	.	.	156.0	10.0	138.0	0.0	.	37	.	.	Atlas-INDEL
SH3KBP1	30011	hgsc.bcm.edu	hg19	X	19663542	19663542	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SH3KBP1	NM_031892	exon7	c.779delC	p.T260fs	.	.	160.0	10.0	89.0	0.0	.	96	.	.	Atlas-INDEL
PTPRM	5797	hgsc.bcm.edu	hg19	18	8248169	8248169	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PTPRM	NM_001105244	exon17	c.2548delA	p.I850fs	.	.	202.0	14.0	189.0	0.0	.	185	.	.	Atlas-INDEL
PIAS2	9063	hgsc.bcm.edu	hg19	18	44444168	44444168	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PIAS2	NM_173206	exon3	c.544delG	p.A182fs	.	.	167.0	13.0	118.0	0.0	.	85	.	.	Atlas-INDEL
AGFG1	3267	hgsc.bcm.edu	hg19	2	228418462	228418462	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AGFG1	NM_001135187	exon13	c.1645delA	p.T549fs	.	.	182.0	12.0	108.0	0.0	.	80	.	.	Atlas-INDEL
TBC1D8B	54885	hgsc.bcm.edu	hg19	X	106096825	106096825	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TBC1D8B	NM_017752	exon13	c.2197delG	p.E733fs	.	.	201.0	13.0	141.0	0.0	.	181	.	.	Atlas-INDEL
CIDEC	63924	hgsc.bcm.edu	hg19	3	9911858	9911858	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CIDEC	NM_001199623	exon4	c.396delA	p.P132fs	.	.	131.0	13.0	92.0	0.0	.	22	.	.	Atlas-INDEL
MAP3K13	9175	hgsc.bcm.edu	hg19	3	185165720	185165720	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAP3K13	NM_001242314	exon6	c.994delG	p.E332fs	.	.	163.0	12.0	150.0	0.0	.	209	.	.	Atlas-INDEL
MADD	8567	hgsc.bcm.edu	hg19	11	47315481	47315481	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MADD	NM_130475	exon22	c.3462delG	p.E1154fs	.	.	150.0	12.0	110.0	0.0	.	172	.	.	Atlas-INDEL
RNASEL	6041	hgsc.bcm.edu	hg19	1	182555572	182555572	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RNASEL	NM_021133	exon2	c.371delA	p.Y124fs	.	.	150.0	10.0	74.0	0.0	.	83	.	.	Atlas-INDEL
SETDB1	9869	hgsc.bcm.edu	hg19	1	150933041	150933041	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SETDB1	NM_012432	exon16	c.2502delC	p.G834fs	.	.	154.0	10.0	79.0	0.0	.	204	.	.	Atlas-INDEL
SCN7A	6332	hgsc.bcm.edu	hg19	2	167288989	167288989	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SCN7A	NM_002976	exon15	c.2432delG	p.S811fs	.	.	192.0	14.0	151.0	0.0	.	410	.	.	Atlas-INDEL
SLC17A1	6568	hgsc.bcm.edu	hg19	6	25813132	25813132	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC17A1	NM_005074	exon8	c.825delC	p.F275fs	.	.	160.0	10.0	104.0	0.0	.	71	.	.	Atlas-INDEL
PER3	8863	hgsc.bcm.edu	hg19	1	7895908	7895908	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PER3	NM_016831	exon19	c.3273delG	p.Q1091fs	.	.	222.0	15.0	167.0	0.0	.	95	.	.	Atlas-INDEL
PSMD3	5709	hgsc.bcm.edu	hg19	17	38137367	38137367	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PSMD3	NM_002809	exon1	c.143delC	p.T48fs	.	.	175.0	12.0	119.0	0.0	.	56	.	.	Atlas-INDEL
MTRF1	9617	hgsc.bcm.edu	hg19	13	41800662	41800662	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MTRF1	NM_004294	exon8	c.1032delT	p.N344fs	.	.	219.0	14.0	151.0	0.0	.	24	.	.	Atlas-INDEL
PTPRJ	5795	hgsc.bcm.edu	hg19	11	48149344	48149344	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PTPRJ	NM_001098503	exon7	c.1105delG	p.V369fs	.	.	104.0	10.0	71.0	0.0	.	225	.	.	Atlas-INDEL
SEC22C	9117	hgsc.bcm.edu	hg19	3	42599114	42599114	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SEC22C	NM_004206	exon5	c.602delT	p.L201fs	.	.	164.0	11.0	180.0	0.0	.	27	.	.	Atlas-INDEL
SLCO4A1	28231	hgsc.bcm.edu	hg19	20	61303147	61303147	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLCO4A1	NM_016354	exon12	c.2070delG	p.K690fs	.	.	182.0	11.0	134.0	0.0	.	65	.	.	Atlas-INDEL
MUC5B	727897	hgsc.bcm.edu	hg19	11	1278487	1278487	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MUC5B	NM_002458	exon40	c.16254delT	p.D5418fs	.	.	208.0	13.0	191.0	0.0	.	473	.	.	Atlas-INDEL
THNSL1	79896	hgsc.bcm.edu	hg19	10	25314273	25314273	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	THNSL1	NM_024838	exon3	c.2120delC	p.A707fs	.	.	241.0	15.0	118.0	0.0	.	70	.	.	Atlas-INDEL
OXCT1	5019	hgsc.bcm.edu	hg19	5	41862804	41862804	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OXCT1	NM_000436	exon2	c.128delA	p.Y43fs	.	.	185.0	13.0	172.0	0.0	.	54	.	.	Atlas-INDEL
CHD8	57680	hgsc.bcm.edu	hg19	14	21876929	21876929	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHD8	NM_001170629	exon11	c.2421delC	p.N807fs	.	.	164.0	11.0	117.0	0.0	.	339	.	.	Atlas-INDEL
ZCCHC7	84186	hgsc.bcm.edu	hg19	9	37349430	37349430	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZCCHC7	NM_032226	exon7	c.1063delC	p.Q355fs	.	.	147.0	11.0	113.0	0.0	.	56	.	.	Atlas-INDEL
LENG8	114823	hgsc.bcm.edu	hg19	19	54967951	54967951	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LENG8	NM_052925	exon11	c.1581delG	p.E527fs	.	.	127.0	10.0	73.0	0.0	.	73	.	.	Atlas-INDEL
KCNT2	343450	hgsc.bcm.edu	hg19	1	196227429	196227429	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KCNT2	NM_198503	exon26	c.3107delT	p.I1036fs	.	.	346.0	22.0	229.0	0.0	.	243	.	.	Atlas-Indel,Pindel
CELA2A	63036	hgsc.bcm.edu	hg19	1	15783592	15783592	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CELA2A	NM_033440	exon2	c.51delT	p.C17fs	.	.	238.0	15.0	207.0	0.0	.	32	.	.	Atlas-INDEL
RBMXL3	139804	hgsc.bcm.edu	hg19	X	114426075	114426075	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RBMXL3	NM_001145346	exon1	c.2070delT	p.S690fs	.	.	174.0	12.0	148.0	0.0	.	83	.	.	Atlas-INDEL
SNRK	54861	hgsc.bcm.edu	hg19	3	43389468	43389468	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SNRK	NM_001100594	exon6	c.1716delG	p.G572fs	.	.	153.0	10.0	129.0	0.0	.	118	.	.	Atlas-INDEL
TFDP3	51270	hgsc.bcm.edu	hg19	X	132351743	132351743	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TFDP3	NM_016521	exon1	c.546delG	p.K182fs	.	.	95.0	10.0	64.0	0.0	.	92	.	.	Atlas-INDEL
NID2	22795	hgsc.bcm.edu	hg19	14	52505655	52505655	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NID2	NM_007361	exon9	c.2068delG	p.G690fs	.	.	155.0	11.0	123.0	0.0	.	201	.	.	Atlas-INDEL
SAMD3	154075	hgsc.bcm.edu	hg19	6	130467230	130467230	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SAMD3	NM_001017373	exon10	c.1121delC	p.S374X	.	.	97.0	10.0	80.0	0.0	.	98	.	.	Atlas-INDEL
RERE	473	hgsc.bcm.edu	hg19	1	8421412	8421412	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RERE	NM_012102	exon19	c.2156delA	p.Q719fs	.	.	136.0	10.0	124.0	0.0	.	129	.	.	Atlas-INDEL
FARP2	9855	hgsc.bcm.edu	hg19	2	242373660	242373660	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FARP2	NM_014808	exon10	c.954delC	p.T318fs	.	.	159.0	12.0	126.0	0.0	.	92	.	.	Atlas-INDEL
TTLL4	9654	hgsc.bcm.edu	hg19	2	219602445	219602445	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTLL4	NM_014640	exon3	c.45delG	p.Q15fs	.	.	170.0	11.0	123.0	0.0	.	96	.	.	Atlas-INDEL
DDX42	11325	hgsc.bcm.edu	hg19	17	61877936	61877936	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DDX42	NM_203499	exon6	c.579delC	p.T193fs	.	.	191.0	15.0	135.0	0.0	.	86	.	.	Atlas-INDEL
HTR2C	3358	hgsc.bcm.edu	hg19	X	114141772	114141772	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HTR2C	NM_000868	exon6	c.1170delG	p.E390fs	.	.	166.0	11.0	131.0	0.0	.	117	.	.	Atlas-INDEL
SLFN11	91607	hgsc.bcm.edu	hg19	17	33680769	33680769	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLFN11	NM_152270	exon4	c.1509delC	p.G503fs	.	.	338.0	21.0	366.0	0.0	.	112	.	.	Atlas-INDEL
SVEP1	79987	hgsc.bcm.edu	hg19	9	113132231	113132231	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SVEP1	NM_153366	exon47	c.10667delC	p.S3556fs	.	.	121.0	10.0	125.0	0.0	.	326	.	.	Atlas-INDEL
DCBLD2	131566	hgsc.bcm.edu	hg19	3	98544174	98544174	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DCBLD2	NM_080927	exon4	c.609delG	p.L203fs	.	.	134.0	10.0	100.0	0.0	.	62	.	.	Atlas-INDEL
ADAMTSL3	57188	hgsc.bcm.edu	hg19	15	84592778	84592778	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	ADAMTSL3,mouth,carcinoma,0,1	ADAMTSL3	NM_207517	exon17	c.2109delT	p.C703fs	.	.	172.0	11.0	156.0	0.0	.	290	.	.	Atlas-INDEL
PDE2A	5138	hgsc.bcm.edu	hg19	11	72342169	72342169	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PDE2A	NM_001243784	exon2	c.35delT	p.L12fs	.	.	133.0	10.0	83.0	0.0	.	156	.	.	Atlas-INDEL
ERG	2078	hgsc.bcm.edu	hg19	21	39755389	39755389	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ERG	NM_001136154	exon12	c.1398delT	p.G466fs	.	.	150.0	10.0	131.0	0.0	.	78	.	.	Atlas-INDEL
GGCT	79017	hgsc.bcm.edu	hg19	7	30540183	30540183	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GGCT	NM_024051	exon2	c.257delT	p.M86fs	.	.	133.0	10.0	98.0	0.0	.	17	.	.	Atlas-INDEL
PBX4	80714	hgsc.bcm.edu	hg19	19	19681606	19681606	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PBX4	NM_025245	exon3	c.231delT	p.P77fs	.	.	133.0	10.0	96.0	0.0	.	34	.	.	Atlas-INDEL
CELSR2	1952	hgsc.bcm.edu	hg19	1	109810210	109810210	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CELSR2	NM_001408	exon16	c.6053delT	p.L2018fs	.	.	145.0	11.0	157.0	0.0	.	228	.	.	Atlas-INDEL
CLASP1	23332	hgsc.bcm.edu	hg19	2	122182819	122182819	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLASP1	NM_001142273	exon23	c.2133delC	p.G711fs	.	.	144.0	10.0	104.0	0.0	.	135	.	.	Atlas-INDEL
MED14	9282	hgsc.bcm.edu	hg19	X	40562784	40562784	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MED14	NM_004229	exon11	c.1324delA	p.I442fs	.	.	199.0	14.0	132.0	0.0	.	108	.	.	Atlas-INDEL
MAP7D3	79649	hgsc.bcm.edu	hg19	X	135323367	135323367	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAP7D3	NM_024597	exon5	c.488delG	p.R163fs	.	.	157.0	10.0	146.0	0.0	.	102	.	.	Atlas-INDEL
PADI3	51702	hgsc.bcm.edu	hg19	1	17593227	17593227	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PADI3	NM_016233	exon5	c.421delT	p.W141fs	.	.	184.0	12.0	151.0	0.0	.	81	.	.	Atlas-INDEL
RNF123	63891	hgsc.bcm.edu	hg19	3	49740924	49740924	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RNF123	NM_022064	exon21	c.1814delT	p.L605fs	.	.	241.0	20.0	208.0	0.0	.	100	.	.	Atlas-INDEL
NWD1	284434	hgsc.bcm.edu	hg19	19	16908642	16908642	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NWD1	NM_001007525	exon16	c.3403delG	p.V1135fs	.	.	162.0	15.0	153.0	0.0	.	303	.	.	Atlas-INDEL
HKDC1	80201	hgsc.bcm.edu	hg19	10	71017124	71017124	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HKDC1	NM_025130	exon14	c.1973delT	p.V658fs	.	.	183.0	12.0	149.0	0.0	.	98	.	.	Atlas-INDEL
FST	10468	hgsc.bcm.edu	hg19	5	52779494	52779494	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FST	NM_006350	exon3	c.437delT	p.L146fs	.	.	213.0	15.0	136.0	0.0	.	42	.	.	Atlas-INDEL
ATP8A1	10396	hgsc.bcm.edu	hg19	4	42588395	42588395	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATP8A1	NM_006095	exon9	c.694delG	p.V232fs	.	.	179.0	11.0	182.0	0.0	.	206	.	.	Atlas-INDEL
SUPT20HL2	170067	hgsc.bcm.edu	hg19	X	24330071	24330071	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001136233	exon1	c.1363delG	p.G455fs	.	.	112.0	12.0	91.0	0.0	.	.	.	.	Atlas-INDEL
LAMA2	3908	hgsc.bcm.edu	hg19	6	129826417	129826417	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	LAMA2	NM_000426	exon61	c.8619delC	p.P2873fs	.	.	173.0	13.0	187.0	0.0	.	481	.	.	Atlas-INDEL
TRAK1	22906	hgsc.bcm.edu	hg19	3	42166974	42166974	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TRAK1	NM_001042646	exon2	c.153delG	p.L51fs	.	.	159.0	10.0	111.0	0.0	.	188	.	.	Atlas-INDEL
LY86	9450	hgsc.bcm.edu	hg19	6	6588976	6588976	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LY86	NM_004271	exon1	c.8delG	p.G3fs	.	.	135.0	10.0	55.0	0.0	.	18	.	.	Atlas-INDEL
PRH1	5554	hgsc.bcm.edu	hg19	12	11035175	11035175	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRH1	NM_006250	exon3	c.224delA	p.Q75fs	.	.	214.0	14.0	220.0	0.0	.	17	.	.	Atlas-INDEL
RERE	473	hgsc.bcm.edu	hg19	1	8418658	8418658	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RERE	NM_012102	exon21	c.3938delA	p.E1313fs	.	.	131.0	11.0	105.0	0.0	.	129	.	.	Atlas-INDEL
NFATC1	4772	hgsc.bcm.edu	hg19	18	77193695	77193695	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NFATC1	NM_006162	exon3	c.1342delC	p.R448fs	.	.	155.0	10.0	99.0	0.0	.	105	.	.	Atlas-INDEL
COPS6	10980	hgsc.bcm.edu	hg19	7	99687281	99687281	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COPS6	NM_006833	exon3	c.245delA	p.E82fs	.	.	199.0	12.0	199.0	0.0	.	31	.	.	Atlas-INDEL
MAP3K1	4214	hgsc.bcm.edu	hg19	5	56170970	56170970	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAP3K1	NM_005921	exon10	c.1797delT	p.N599fs	.	.	193.0	14.0	197.0	0.0	.	355	.	.	Atlas-INDEL
UNK	85451	hgsc.bcm.edu	hg19	17	73818612	73818612	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UNK	NM_001080419	exon14	c.1891delT	p.S631fs	.	.	152.0	10.0	127.0	0.0	.	87	.	.	Atlas-INDEL
ALS2CL	259173	hgsc.bcm.edu	hg19	3	46724741	46724741	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ALS2CL	NM_001190707	exon10	c.989delC	p.A330fs	.	.	144.0	10.0	114.0	0.0	.	78	.	.	Atlas-INDEL
SLC2A2	6514	hgsc.bcm.edu	hg19	3	170716076	170716076	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC2A2	NM_000340	exon10	c.1281delC	p.F427fs	.	.	174.0	11.0	156.0	0.0	.	71	.	.	Atlas-INDEL
SOX15	6665	hgsc.bcm.edu	hg19	17	7492683	7492683	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SOX15	NM_006942	exon1	c.313delC	p.L105fs	.	.	158.0	11.0	126.0	0.0	.	10	.	.	Atlas-INDEL
OTOA	146183	hgsc.bcm.edu	hg19	16	21742178	21742178	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OTOA	NM_144672	exon20	c.2227delG	p.A743fs	.	.	153.0	10.0	154.0	0.0	.	144	.	.	Atlas-INDEL
SCML1	6322	hgsc.bcm.edu	hg19	X	17763578	17763578	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SCML1	NM_001037540	exon3	c.35delT	p.I12fs	.	.	152.0	12.0	138.0	0.0	.	55	.	.	Atlas-INDEL
ATR	545	hgsc.bcm.edu	hg19	3	142178110	142178110	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATR	NM_001184	exon43	c.7309delC	p.H2437fs	.	.	139.0	10.0	112.0	0.0	.	285	.	.	Atlas-INDEL
GALNT4	8693	hgsc.bcm.edu	hg19	12	89918093	89918093	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GALNT4	NM_003774	exon1	c.235delA	p.K79fs	.	.	161.0	10.0	144.0	0.0	.	38	.	.	Atlas-INDEL
POU5F2	134187	hgsc.bcm.edu	hg19	5	93076558	93076558	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	POU5F2	NM_153216	exon1	c.713delA	p.Q238fs	.	.	221.0	14.0	201.0	0.0	.	10	.	.	Atlas-INDEL
LRFN4	78999	hgsc.bcm.edu	hg19	11	66627324	66627324	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LRFN4	NM_024036	exon2	c.1565delT	p.V522fs	.	.	124.0	11.0	67.0	0.0	.	25	.	.	Atlas-INDEL
CCDC80	151887	hgsc.bcm.edu	hg19	3	112335650	112335650	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CCDC80	NM_199512	exon5	c.2229delC	p.F743fs	.	.	158.0	11.0	119.0	0.0	.	100	.	.	Atlas-INDEL
UFL1	23376	hgsc.bcm.edu	hg19	6	96990799	96990799	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_015323	exon12	c.1308delT	p.G436fs	.	.	232.0	14.0	223.0	0.0	.	.	.	.	Atlas-INDEL
PARG	8505	hgsc.bcm.edu	hg19	10	51077558	51077558	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PARG	NM_003631	exon10	c.2033delC	p.T678fs	.	.	212.0	13.0	179.0	0.0	.	46	.	.	Atlas-INDEL
CDH20	28316	hgsc.bcm.edu	hg19	18	59167713	59167713	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDH20	NM_031891	exon3	c.638delA	p.Y213fs	.	.	163.0	11.0	106.0	0.0	.	117	.	.	Atlas-INDEL
PRRT4	401399	hgsc.bcm.edu	hg19	7	127999861	127999861	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRRT4	NM_001174164	exon3	c.186delA	p.G62fs	.	.	182.0	11.0	158.0	0.0	.	31	.	.	Atlas-INDEL
PODNL1	79883	hgsc.bcm.edu	hg19	19	14044198	14044198	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PODNL1	NM_024825	exon8	c.860delG	p.R287fs	.	.	168.0	12.0	158.0	0.0	.	27	.	.	Atlas-INDEL
PRRC2C	23215	hgsc.bcm.edu	hg19	1	171483721	171483721	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_015172	exon4	c.330delT	p.A110fs	.	.	312.0	21.0	157.0	0.0	.	.	.	.	Atlas-INDEL
BACE1	23621	hgsc.bcm.edu	hg19	11	117186306	117186306	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BACE1	NM_138972	exon1	c.207delC	p.G69fs	.	.	166.0	12.0	140.0	0.0	.	33	.	.	Atlas-INDEL
GTF2I	2969	hgsc.bcm.edu	hg19	7	74163404	74163404	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GTF2I	NM_032999	exon25	c.2212delG	p.E738fs	.	.	177.0	11.0	106.0	0.0	.	40	.	.	Atlas-INDEL
IQCG	84223	hgsc.bcm.edu	hg19	3	197659165	197659165	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IQCG	NM_032263	exon6	c.525delC	p.F175fs	.	.	160.0	11.0	113.0	0.0	.	44	.	.	Atlas-INDEL
SF3A1	10291	hgsc.bcm.edu	hg19	22	30733103	30733103	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SF3A1	NM_005877	exon13	c.2019delA	p.P673fs	.	.	166.0	10.0	113.0	0.0	.	61	.	.	Atlas-INDEL
RRH	10692	hgsc.bcm.edu	hg19	4	110758642	110758642	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RRH	NM_006583	exon5	c.600delG	p.V200fs	.	.	173.0	11.0	198.0	0.0	.	24	.	.	Atlas-INDEL
UGGT1	56886	hgsc.bcm.edu	hg19	2	128900693	128900693	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UGGT1	NM_020120	exon17	c.1744delG	p.E582fs	.	.	129.0	10.0	80.0	0.0	.	126	.	.	Atlas-INDEL
NEMF	9147	hgsc.bcm.edu	hg19	14	50295460	50295460	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NEMF	NM_004713	exon14	c.1299delT	p.N433fs	.	.	148.0	10.0	135.0	0.0	.	79	.	.	Atlas-INDEL
PPWD1	23398	hgsc.bcm.edu	hg19	5	64865782	64865782	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPWD1	NM_015342	exon4	c.477delG	p.V159fs	.	.	164.0	10.0	110.0	0.0	.	47	.	.	Atlas-INDEL
GPX7	2882	hgsc.bcm.edu	hg19	1	53074002	53074002	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPX7	NM_015696	exon3	c.468delA	p.V156fs	.	.	103.0	10.0	77.0	0.0	.	16	.	.	Atlas-INDEL
BUB1	699	hgsc.bcm.edu	hg19	2	111406915	111406915	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BUB1	NM_004336	exon19	c.2244delC	p.F748fs	.	.	238.0	16.0	163.0	0.0	.	91	.	.	Atlas-INDEL
TBC1D20	128637	hgsc.bcm.edu	hg19	20	428697	428697	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TBC1D20	NM_144628	exon2	c.93delG	p.K31fs	.	.	166.0	11.0	125.0	0.0	.	34	.	.	Atlas-INDEL
ACVR2B	93	hgsc.bcm.edu	hg19	3	38519754	38519754	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ACVR2B	NM_001106	exon4	c.492delG	p.K164fs	.	.	146.0	12.0	100.0	0.0	.	88	.	.	Atlas-INDEL
TMTC4	84899	hgsc.bcm.edu	hg19	13	101278382	101278382	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMTC4	NM_032813	exon13	c.1530delC	p.N510fs	.	.	320.0	23.0	264.0	0.0	.	103	.	.	Atlas-INDEL
DEPDC1B	55789	hgsc.bcm.edu	hg19	5	59893603	59893603	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DEPDC1B	NM_018369	exon11	c.1568delG	p.R523fs	.	.	164.0	11.0	108.0	0.0	.	56	.	.	Atlas-INDEL
DOT1L	84444	hgsc.bcm.edu	hg19	19	2191141	2191141	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DOT1L	NM_032482	exon5	c.394delT	p.S132fs	.	.	159.0	10.0	157.0	0.0	.	205	.	.	Atlas-INDEL
GPATCH1	55094	hgsc.bcm.edu	hg19	19	33605287	33605287	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPATCH1	NM_018025	exon15	c.2157delC	p.N719fs	.	.	157.0	10.0	126.0	0.0	.	79	.	.	Atlas-INDEL
PCDHB12	56124	hgsc.bcm.edu	hg19	5	140590838	140590838	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCDHB12	NM_018932	exon1	c.2358delT	p.N786fs	.	.	194.0	12.0	138.0	0.0	.	179	.	.	Atlas-INDEL
FOSL2	2355	hgsc.bcm.edu	hg19	2	28635091	28635091	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FOSL2	NM_005253	exon4	c.756delT	p.A252fs	.	.	137.0	11.0	93.0	0.0	.	39	.	.	Atlas-INDEL
C22orf28	51493	hgsc.bcm.edu	hg19	22	32784009	32784009	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C22orf28	NM_014306	exon12	c.1489delC	p.L497X	.	.	198.0	12.0	191.0	0.0	.	43	.	.	Atlas-INDEL
STPG1	90529	hgsc.bcm.edu	hg19	1	24696176	24696176	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001199012	exon7	c.726delG	p.K242fs	.	.	157.0	10.0	107.0	0.0	.	.	.	.	Atlas-INDEL
SDC3	9672	hgsc.bcm.edu	hg19	1	31351530	31351530	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SDC3	NM_014654	exon2	c.197delA	p.D66fs	.	.	161.0	10.0	141.0	0.0	.	45	.	.	Atlas-INDEL
APOA2	336	hgsc.bcm.edu	hg19	1	161192790	161192790	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	APOA2	NM_001643	exon3	c.104delC	p.S35fs	.	.	161.0	10.0	89.0	0.0	.	12	.	.	Atlas-INDEL
ANKRD12	23253	hgsc.bcm.edu	hg19	18	9279637	9279637	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANKRD12	NM_015208	exon12	c.5997delA	p.K1999fs	.	.	180.0	12.0	145.0	0.0	.	167	.	.	Atlas-INDEL
KLHL14	57565	hgsc.bcm.edu	hg19	18	30349862	30349862	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLHL14	NM_020805	exon2	c.694delG	p.V232fs	.	.	191.0	12.0	159.0	0.0	.	92	.	.	Atlas-INDEL
ATR	545	hgsc.bcm.edu	hg19	3	142281476	142281476	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATR	NM_001184	exon4	c.769delC	p.Q257fs	.	.	170.0	11.0	128.0	0.0	.	285	.	.	Atlas-INDEL
OSBP	5007	hgsc.bcm.edu	hg19	11	59345771	59345771	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OSBP	NM_002556	exon12	c.1912delG	p.V638fs	.	.	235.0	15.0	212.0	0.0	.	57	.	.	Atlas-INDEL
PDE7A	5150	hgsc.bcm.edu	hg19	8	66753692	66753692	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PDE7A	NM_001242318	exon1	c.53delA	p.Q18fs	.	.	232.0	14.0	111.0	0.0	.	78	.	.	Atlas-INDEL
KIF21B	23046	hgsc.bcm.edu	hg19	1	200944033	200944033	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIF21B	NM_001252102	exon34	c.4624delA	p.N1542fs	.	.	164.0	10.0	110.0	0.0	.	208	.	.	Atlas-INDEL
ZNF214	7761	hgsc.bcm.edu	hg19	11	7022374	7022374	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF214	NM_013249	exon3	c.541delG	p.E181fs	.	.	134.0	10.0	83.0	0.0	.	65	.	.	Atlas-INDEL
HIST1H2AM	8336	hgsc.bcm.edu	hg19	6	27860701	27860701	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	HIST1H2AM,NS,carcinoma,0,1	HIST1H2AM	NM_003514	exon1	c.228delG	p.K76fs	.	.	414.0	26.0	200.0	0.0	.	27	.	.	Atlas-INDEL
HECTD1	25831	hgsc.bcm.edu	hg19	14	31617938	31617938	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HECTD1	NM_015382	exon15	c.2486delC	p.T829fs	.	.	142.0	10.0	131.0	0.0	.	159	.	.	Atlas-INDEL
MINK1	50488	hgsc.bcm.edu	hg19	17	4794826	4794826	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MINK1	NM_170663	exon16	c.1815delG	p.Q605fs	.	.	153.0	10.0	176.0	0.0	.	110	.	.	Atlas-INDEL
RELA	5970	hgsc.bcm.edu	hg19	11	65422151	65422151	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RELA	NM_021975	exon11	c.1355delC	p.A452fs	.	.	119.0	10.0	84.0	0.0	.	44	.	.	Atlas-INDEL
ITM2C	81618	hgsc.bcm.edu	hg19	2	231741644	231741644	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ITM2C	NM_030926	exon4	c.522delG	p.L174fs	.	.	178.0	11.0	124.0	0.0	.	17	.	.	Atlas-INDEL
GUSB	2990	hgsc.bcm.edu	hg19	7	65444761	65444761	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	GUSB	NM_000181	exon3	c.535delA	p.T179fs	.	.	121.0	10.0	80.0	0.0	.	52	.	.	Atlas-INDEL
EFCAB13	124989	hgsc.bcm.edu	hg19	17	45468832	45468832	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_152347	exon15	c.1611delT	p.D537fs	.	.	161.0	10.0	134.0	0.0	.	.	.	.	Atlas-INDEL
PDGFA	5154	hgsc.bcm.edu	hg19	7	540104	540104	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PDGFA	NM_002607	exon6	c.614delG	p.R205fs	.	.	165.0	11.0	133.0	0.0	.	34	.	.	Atlas-INDEL
ECM1	1893	hgsc.bcm.edu	hg19	1	150484838	150484838	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ECM1	NM_001202858	exon8	c.1174delA	p.T392fs	.	.	226.0	14.0	99.0	0.0	.	96	.	.	Atlas-INDEL
AASS	10157	hgsc.bcm.edu	hg19	7	121758669	121758669	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AASS	NM_005763	exon5	c.489delA	p.L163fs	.	.	203.0	14.0	167.0	0.0	.	123	.	.	Atlas-INDEL
SAMD7	344658	hgsc.bcm.edu	hg19	3	169644580	169644580	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SAMD7	NM_182610	exon6	c.529delT	p.W177fs	.	.	169.0	12.0	140.0	0.0	.	69	.	.	Atlas-INDEL
CHD5	26038	hgsc.bcm.edu	hg19	1	6202277	6202277	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHD5	NM_015557	exon15	c.2348delA	p.D783fs	.	.	158.0	10.0	148.0	0.0	.	267	.	.	Atlas-INDEL
ARAP1	116985	hgsc.bcm.edu	hg19	11	72437746	72437746	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARAP1	NM_001040118	exon3	c.429delG	p.P143fs	.	.	135.0	11.0	86.0	0.0	.	168	.	.	Atlas-INDEL
COL6A1	1291	hgsc.bcm.edu	hg19	21	47418082	47418082	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL6A1	NM_001848	exon23	c.1571delT	p.F524fs	.	.	140.0	10.0	89.0	0.0	.	101	.	.	Atlas-INDEL
EP300	2033	hgsc.bcm.edu	hg19	22	41574679	41574679	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EP300	NM_001429	exon31	c.6963delG	p.Q2321fs	.	.	154.0	11.0	116.0	0.0	.	367	.	.	Atlas-INDEL
SF3B4	10262	hgsc.bcm.edu	hg19	1	149895562	149895562	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	SF3B4	NM_005850	exon6	c.1148delA	p.H383fs	.	.	180.0	11.0	86.0	0.0	.	37	.	.	Atlas-INDEL
MTHFSD	64779	hgsc.bcm.edu	hg19	16	86565823	86565823	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MTHFSD	NM_001159377	exon8	c.947delA	p.D316fs	.	.	159.0	11.0	106.0	0.0	.	52	.	.	Atlas-INDEL
KLHDC4	54758	hgsc.bcm.edu	hg19	16	87788891	87788891	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLHDC4	NM_001184856	exon4	c.279delG	p.L93fs	.	.	166.0	11.0	152.0	0.0	.	45	.	.	Atlas-INDEL
MYO7B	4648	hgsc.bcm.edu	hg19	2	128384760	128384760	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYO7B	NM_001080527	exon32	c.4256delG	p.G1419fs	.	.	156.0	10.0	131.0	0.0	.	359	.	.	Atlas-INDEL
SLC35A4	113829	hgsc.bcm.edu	hg19	5	139946770	139946770	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC35A4	NM_080670	exon3	c.15delT	p.D5fs	.	.	159.0	12.0	120.0	0.0	.	25	.	.	Atlas-INDEL
LRRC2	79442	hgsc.bcm.edu	hg19	3	46580564	46580564	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LRRC2	NM_024512	exon4	c.462delC	p.N154fs	.	.	162.0	10.0	118.0	0.0	.	37	.	.	Atlas-INDEL
TMX3	54495	hgsc.bcm.edu	hg19	18	66367677	66367677	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMX3	NM_019022	exon6	c.358delG	p.D120fs	.	.	187.0	12.0	130.0	0.0	.	44	.	.	Atlas-INDEL
KIAA1468	57614	hgsc.bcm.edu	hg19	18	59936142	59936142	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIAA1468	NM_020854	exon20	c.2720delT	p.V907fs	.	.	211.0	18.0	170.0	0.0	.	93	.	.	Atlas-INDEL
SEMA3C	10512	hgsc.bcm.edu	hg19	7	80447658	80447658	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SEMA3C	NM_006379	exon5	c.405delC	p.F135fs	.	.	167.0	11.0	162.0	0.0	.	106	.	.	Atlas-INDEL
SAAL1	113174	hgsc.bcm.edu	hg19	11	18111818	18111818	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SAAL1	NM_138421	exon6	c.494delC	p.S165fs	.	.	133.0	10.0	101.0	0.0	.	34	.	.	Atlas-INDEL
ADAM22	53616	hgsc.bcm.edu	hg19	7	87808298	87808298	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADAM22	NM_021723	exon27	c.2348delC	p.S783fs	.	.	240.0	16.0	188.0	0.0	.	280	.	.	Atlas-INDEL
AP1G2	8906	hgsc.bcm.edu	hg19	14	24032654	24032654	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	AP1G2	NM_003917	exon14	c.1346delC	p.A449fs	.	.	151.0	11.0	166.0	0.0	.	75	.	.	Atlas-INDEL
NPAS1	4861	hgsc.bcm.edu	hg19	19	47546077	47546077	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NPAS1	NM_002517	exon10	c.1226delA	p.E409fs	.	.	201.0	13.0	180.0	0.0	.	32	.	.	Atlas-INDEL
CPLX2	10814	hgsc.bcm.edu	hg19	5	175305939	175305939	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CPLX2	NM_006650	exon4	c.59delT	p.L20fs	.	.	194.0	13.0	162.0	0.0	.	42	.	.	Atlas-INDEL
MYLK2	85366	hgsc.bcm.edu	hg19	20	30419520	30419520	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYLK2	NM_033118	exon11	c.1438delT	p.S480fs	.	.	145.0	11.0	89.0	0.0	.	76	.	.	Atlas-INDEL
WDR89	112840	hgsc.bcm.edu	hg19	14	64066253	64066253	+	Frame_Shift_Del	DEL	T	T	-	rs376382796	bycluster	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WDR89	NM_080666	exon3	c.409delG	p.V137fs	.	.	150.0	10.0	153.0	0.0	.	22	.	.	Atlas-INDEL
RGS7	6000	hgsc.bcm.edu	hg19	1	241262025	241262025	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RGS7	NM_002924	exon3	c.117delT	p.N39fs	.	.	107.0	11.0	52.0	0.0	.	308	.	.	Atlas-INDEL
CNGB1	1258	hgsc.bcm.edu	hg19	16	57949179	57949179	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CNGB1	NM_001297	exon23	c.2279delT	p.L760fs	.	.	133.0	10.0	134.0	0.0	.	105	.	.	Atlas-INDEL
VPS13D	55187	hgsc.bcm.edu	hg19	1	12339690	12339690	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	VPS13D	NM_015378	exon20	c.4584delA	p.K1528fs	.	.	166.0	12.0	163.0	0.0	.	316	.	.	Atlas-INDEL
TMPRSS7	344805	hgsc.bcm.edu	hg19	3	111780666	111780666	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMPRSS7	NM_001042575	exon9	c.964delA	p.I322fs	.	.	172.0	12.0	139.0	0.0	.	126	.	.	Atlas-INDEL
GPR119	139760	hgsc.bcm.edu	hg19	X	129518461	129518461	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR119	NM_178471	exon1	c.962delG	p.S321fs	.	.	127.0	10.0	78.0	0.0	.	34	.	.	Atlas-INDEL
XDH	7498	hgsc.bcm.edu	hg19	2	31571774	31571774	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	XDH	NM_000379	exon27	c.3043delC	p.L1015X	.	.	173.0	11.0	90.0	0.0	.	191	.	.	Atlas-INDEL
ATXN1	6310	hgsc.bcm.edu	hg19	6	16327684	16327684	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATXN1	NM_001128164	exon7	c.859delT	p.S287fs	.	.	334.0	21.0	181.0	0.0	.	117	.	.	Atlas-INDEL
TTC38	55020	hgsc.bcm.edu	hg19	22	46671215	46671215	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	TTC38,NS,carcinoma,0,1	TTC38	NM_017931	exon5	c.435delG	p.L145fs	.	.	162.0	10.0	116.0	0.0	.	40	.	.	Atlas-INDEL
UIMC1	51720	hgsc.bcm.edu	hg19	5	176409596	176409596	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UIMC1	NM_016290	exon2	c.22delG	p.V8fs	.	.	236.0	15.0	168.0	0.0	.	55	.	.	Atlas-INDEL
UBE2C	11065	hgsc.bcm.edu	hg19	20	44444540	44444540	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UBE2C	NM_007019	exon5	c.468delG	p.W156X	.	.	105.0	10.0	82.0	0.0	.	31	.	.	Atlas-INDEL
COPB2	9276	hgsc.bcm.edu	hg19	3	139096994	139096994	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COPB2	NM_004766	exon5	c.394delT	p.W132fs	.	.	128.0	10.0	111.0	0.0	.	80	.	.	Atlas-INDEL
ATP10D	57205	hgsc.bcm.edu	hg19	4	47574996	47574996	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATP10D	NM_020453	exon18	c.3347delA	p.Y1116fs	.	.	206.0	14.0	159.0	0.0	.	168	.	.	Atlas-INDEL
LTF	4057	hgsc.bcm.edu	hg19	3	46479553	46479553	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LTF	NM_002343	exon16	c.1977delC	p.N659fs	.	.	193.0	12.0	136.0	0.0	.	98	.	.	Atlas-INDEL
LRRC36	55282	hgsc.bcm.edu	hg19	16	67381385	67381385	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LRRC36	NM_001161575	exon1	c.15delG	p.R5fs	.	.	152.0	10.0	125.0	0.0	.	68	.	.	Atlas-INDEL
GPR180	160897	hgsc.bcm.edu	hg19	13	95278272	95278272	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR180	NM_180989	exon8	c.1138delA	p.I380fs	.	.	160.0	12.0	78.0	0.0	.	24	.	.	Atlas-INDEL
GPATCH8	23131	hgsc.bcm.edu	hg19	17	42478249	42478249	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPATCH8	NM_001002909	exon8	c.1197delA	p.P399fs	.	.	122.0	10.0	110.0	0.0	.	114	.	.	Atlas-INDEL
SLCO1B3	28234	hgsc.bcm.edu	hg19	12	21032426	21032426	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLCO1B3	NM_019844	exon11	c.1191delT	p.I397fs	.	.	134.0	17.0	139.0	0.0	.	151	.	.	Atlas-INDEL
ANK2	287	hgsc.bcm.edu	hg19	4	114278579	114278579	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANK2	NM_001148	exon38	c.8804delC	p.S2935fs	.	.	166.0	10.0	130.0	0.0	.	576	.	.	Atlas-INDEL
PDE4D	5144	hgsc.bcm.edu	hg19	5	58271490	58271490	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PDE4D	NM_001104631	exon14	c.2008delT	p.S670fs	.	.	180.0	11.0	142.0	0.0	.	345	.	.	Atlas-INDEL
HOXB2	3212	hgsc.bcm.edu	hg19	17	46620942	46620942	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HOXB2	NM_002145	exon2	c.560delT	p.V187fs	.	.	181.0	11.0	218.0	0.0	.	23	.	.	Atlas-INDEL
PCCB	5096	hgsc.bcm.edu	hg19	3	135979364	135979364	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCCB	NM_001178014	exon5	c.475delC	p.Q159fs	.	.	152.0	10.0	122.0	0.0	.	52	.	.	Atlas-INDEL
PAPSS1	9061	hgsc.bcm.edu	hg19	4	108615045	108615045	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PAPSS1	NM_005443	exon3	c.294delT	p.N98fs	.	.	107.0	11.0	102.0	0.0	.	57	.	.	Atlas-INDEL
FAM135A	57579	hgsc.bcm.edu	hg19	6	71191751	71191751	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM135A	NM_001162529	exon8	c.716delG	p.R239fs	.	.	154.0	10.0	142.0	0.0	.	181	.	.	Atlas-INDEL
THSD7A	221981	hgsc.bcm.edu	hg19	7	11632925	11632925	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	THSD7A,colon,carcinoma,0,1	THSD7A	NM_015204	exon3	c.1228delG	p.E410fs	.	.	124.0	10.0	96.0	0.0	.	219	.	.	Atlas-INDEL
DDX52	11056	hgsc.bcm.edu	hg19	17	35988606	35988606	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DDX52	NM_007010	exon6	c.859delG	p.D287fs	.	.	142.0	11.0	102.0	0.0	.	40	.	.	Atlas-INDEL
CMBL	134147	hgsc.bcm.edu	hg19	5	10282342	10282342	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CMBL	NM_138809	exon5	c.526delG	p.A176fs	.	.	178.0	13.0	109.0	0.0	.	24	.	.	Atlas-INDEL
KCNAB1	7881	hgsc.bcm.edu	hg19	3	155838473	155838473	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KCNAB1	NM_172160	exon1	c.72delT	p.S24fs	.	.	128.0	26.0	109.0	0.0	.	176	.	.	Atlas-Indel,Pindel
LRP1B	53353	hgsc.bcm.edu	hg19	2	141272298	141272298	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LRP1B	NM_018557	exon51	c.8194delT	p.C2732fs	.	.	194.0	12.0	145.0	0.0	.	1315	.	.	Atlas-INDEL
CAMK1D	57118	hgsc.bcm.edu	hg19	10	12856212	12856212	+	Frame_Shift_Del	DEL	T	T	-	rs34483463	alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CAMK1D	NM_153498	exon7	c.659delC	p.P220fs	.	.	191.0	13.0	159.0	0.0	.	99	.	.	Atlas-INDEL
LINGO4	339398	hgsc.bcm.edu	hg19	1	151773948	151773948	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LINGO4	NM_001004432	exon2	c.1234delC	p.P412fs	.	.	162.0	10.0	91.0	0.0	.	51	.	.	Atlas-INDEL
ITGB2	3689	hgsc.bcm.edu	hg19	21	46309403	46309403	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ITGB2	NM_000211	exon13	c.1666delC	p.L556fs	.	.	174.0	11.0	159.0	0.0	.	107	.	.	Atlas-INDEL
CEP41	95681	hgsc.bcm.edu	hg19	7	130039927	130039927	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	TSGA14,bladder,carcinoma,0,1	.	NM_018718	exon10	c.927delG	p.K309fs	.	.	115.0	11.0	62.0	0.0	.	.	.	.	Atlas-INDEL
CORO7-PAM16	100529144	hgsc.bcm.edu	hg19	16	4391385	4391385	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001201479	exon29	c.2979delT	p.P993fs	.	.	202.0	15.0	194.0	0.0	.	.	.	.	Atlas-INDEL
FAM65B	9750	hgsc.bcm.edu	hg19	6	24843580	24843580	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM65B	NM_014722	exon14	c.1431delT	p.G477fs	.	.	177.0	11.0	102.0	0.0	.	134	.	.	Atlas-INDEL
SPECC1	92521	hgsc.bcm.edu	hg19	17	19999991	19999991	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SPECC1	NM_001033553	exon2	c.26delA	p.N9fs	.	.	158.0	11.0	168.0	0.0	.	100	.	.	Atlas-INDEL
ZNF484	83744	hgsc.bcm.edu	hg19	9	95609839	95609839	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF484	NM_001261458	exon4	c.1237delC	p.P413fs	.	.	146.0	11.0	98.0	0.0	.	81	.	.	Atlas-INDEL
KCTD13	253980	hgsc.bcm.edu	hg19	16	29922397	29922397	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KCTD13	NM_178863	exon5	c.656delA	p.D219fs	.	.	170.0	12.0	144.0	0.0	.	19	.	.	Atlas-INDEL
SLC12A9	56996	hgsc.bcm.edu	hg19	7	100459490	100459490	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	SLC12A9	NM_001267812	exon12	c.1667delA	p.K556fs	.	.	165.0	12.0	135.0	0.0	.	81	.	.	Atlas-INDEL
DPP3	10072	hgsc.bcm.edu	hg19	11	66252728	66252728	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DPP3	NM_130443	exon3	c.354delG	p.L118fs	.	.	109.0	10.0	105.0	0.0	.	61	.	.	Atlas-INDEL
PARP14	54625	hgsc.bcm.edu	hg19	3	122437236	122437236	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,2	PARP14	NM_017554	exon14	c.4237delC	p.Q1413fs	.	.	158.0	13.0	88.0	0.0	.	242	.	.	Atlas-INDEL
EPN1	29924	hgsc.bcm.edu	hg19	19	56206189	56206189	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EPN1	NM_001130071	exon10	c.1619delG	p.S540fs	.	.	188.0	13.0	155.0	0.0	.	98	.	.	Atlas-INDEL
DDIT4L	115265	hgsc.bcm.edu	hg19	4	101108955	101108955	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DDIT4L	NM_145244	exon3	c.462delC	p.F154fs	.	.	181.0	13.0	178.0	0.0	.	33	.	.	Atlas-INDEL
APOD	347	hgsc.bcm.edu	hg19	3	195295847	195295847	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	APOD	NM_001647	exon5	c.495delT	p.N165fs	.	.	180.0	11.0	198.0	0.0	.	28	.	.	Atlas-INDEL
ARID4A	5926	hgsc.bcm.edu	hg19	14	58796774	58796774	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARID4A	NM_002892	exon11	c.792delG	p.W264X	.	.	148.0	10.0	166.0	0.0	.	222	.	.	Atlas-INDEL
LILRB2	10288	hgsc.bcm.edu	hg19	19	54781769	54781769	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LILRB2	NM_005874	exon8	c.1284delA	p.P428fs	.	.	242.0	16.0	147.0	0.0	.	94	.	.	Atlas-INDEL
C1D	10438	hgsc.bcm.edu	hg19	2	68270088	68270088	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C1D	NM_001190265	exon6	c.360delT	p.N120fs	.	.	164.0	10.0	122.0	0.0	.	11	.	.	Atlas-INDEL
HDX	139324	hgsc.bcm.edu	hg19	X	83730320	83730320	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HDX	NM_144657	exon2	c.87delT	p.N29fs	.	.	148.0	10.0	146.0	0.0	.	124	.	.	Atlas-INDEL
ZNF532	55205	hgsc.bcm.edu	hg19	18	56585671	56585671	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF532	NM_018181	exon4	c.151delT	p.S51fs	.	.	107.0	10.0	83.0	0.0	.	108	.	.	Atlas-INDEL
HLA-DRB5	3127	hgsc.bcm.edu	hg19	6	32487268	32487268	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HLA-DRB5	NM_002125	exon3	c.532delC	p.Q178fs	.	.	158.0	10.0	117.0	0.0	.	31	.	.	Atlas-INDEL
SLC4A11	83959	hgsc.bcm.edu	hg19	20	3218620	3218620	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC4A11	NM_001174090	exon1	c.92delA	p.E31fs	.	.	147.0	10.0	111.0	0.0	.	188	.	.	Atlas-INDEL
NOL10	79954	hgsc.bcm.edu	hg19	2	10742949	10742949	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOL10	NM_024894	exon16	c.1286delT	p.I429fs	.	.	156.0	10.0	94.0	0.0	.	22	.	.	Atlas-INDEL
DNM3	26052	hgsc.bcm.edu	hg19	1	172356459	172356459	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNM3	NM_015569	exon19	c.2244delA	p.A748fs	.	.	158.0	11.0	81.0	0.0	.	85	.	.	Atlas-INDEL
SETD2	29072	hgsc.bcm.edu	hg19	3	47143010	47143010	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SETD2	NM_014159	exon8	c.4954delA	p.T1652fs	.	.	160.0	12.0	128.0	0.0	.	721	.	.	Atlas-INDEL
CAPN2	824	hgsc.bcm.edu	hg19	1	223934727	223934727	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CAPN2	NM_001748	exon5	c.588delA	p.S196fs	.	.	193.0	14.0	133.0	0.0	.	69	.	.	Atlas-INDEL
BAIAP2L1	55971	hgsc.bcm.edu	hg19	7	97939854	97939854	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	BAIAP2L1,NS,carcinoma,0,1	BAIAP2L1	NM_018842	exon9	c.859delG	p.A287fs	.	.	169.0	13.0	111.0	0.0	.	61	.	.	Atlas-INDEL
KIAA1199	57214	hgsc.bcm.edu	hg19	15	81221438	81221438	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIAA1199	NM_018689	exon20	c.2534delT	p.V845fs	.	.	313.0	19.0	229.0	0.0	.	118	.	.	Atlas-INDEL
ERO1L	30001	hgsc.bcm.edu	hg19	14	53119839	53119839	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ERO1L	NM_014584	exon12	c.1004delT	p.I335fs	.	.	142.0	10.0	140.0	0.0	.	35	.	.	Atlas-INDEL
TAF1A	9015	hgsc.bcm.edu	hg19	1	222753126	222753126	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TAF1A	NM_005681	exon4	c.381delT	p.N127fs	.	.	202.0	13.0	139.0	0.0	.	35	.	.	Atlas-INDEL
CHGB	1114	hgsc.bcm.edu	hg19	20	5904345	5904345	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHGB	NM_001819	exon4	c.1554delA	p.L518fs	.	.	163.0	10.0	95.0	0.0	.	112	.	.	Atlas-INDEL
MSH6	2956	hgsc.bcm.edu	hg19	2	48025968	48025968	+	Frame_Shift_Del	DEL	G	G	-	rs267608062	alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MSH6	NM_000179	exon4	c.845delT	p.V282fs	.	.	130.0	10.0	80.0	0.0	.	341	.	.	Atlas-INDEL
TOX2	84969	hgsc.bcm.edu	hg19	20	42694616	42694616	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TOX2	NM_001098797	exon7	c.1224delG	p.L408fs	.	.	206.0	16.0	115.0	0.0	.	158	.	.	Atlas-INDEL
KIF1B	23095	hgsc.bcm.edu	hg19	1	10327488	10327488	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIF1B	NM_183416	exon6	c.479delC	p.P160fs	.	.	160.0	10.0	144.0	0.0	.	242	.	.	Atlas-INDEL
LIPG	9388	hgsc.bcm.edu	hg19	18	47095818	47095818	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	LIPG,NS,carcinoma,0,1	LIPG	NM_006033	exon4	c.470delA	p.D157fs	.	.	163.0	10.0	154.0	0.0	.	47	.	.	Atlas-INDEL
NAV1	89796	hgsc.bcm.edu	hg19	1	201750396	201750396	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NAV1	NM_020443	exon5	c.1621delT	p.S541fs	.	.	159.0	11.0	99.0	0.0	.	143	.	.	Atlas-INDEL
RGPD5	84220	hgsc.bcm.edu	hg19	2	110588995	110588995	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RGPD5	NM_005054	exon18	c.2567delA	p.Q856fs	.	.	145.0	10.0	80.0	0.0	.	1	.	.	Atlas-INDEL
NOXRED1	122945	hgsc.bcm.edu	hg19	14	77872475	77872475	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOXRED1	NM_001113475	exon5	c.687delA	p.G229fs	.	.	150.0	10.0	169.0	0.0	.	23	.	.	Atlas-INDEL
SLC1A1	6505	hgsc.bcm.edu	hg19	9	4561480	4561480	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC1A1	NM_004170	exon3	c.263delG	p.G88fs	.	.	140.0	11.0	115.0	0.0	.	43	.	.	Atlas-INDEL
ACYP1	97	hgsc.bcm.edu	hg19	14	75520310	75520310	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ACYP1	NM_001107	exon3	c.138delC	p.G46fs	.	.	147.0	10.0	140.0	0.0	.	6	.	.	Atlas-INDEL
PSMA5	5686	hgsc.bcm.edu	hg19	1	109954503	109954503	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PSMA5	NM_002790	exon6	c.455delA	p.Q152fs	.	.	265.0	16.0	184.0	0.0	.	14	.	.	Atlas-INDEL
CDR1	1038	hgsc.bcm.edu	hg19	X	139866088	139866088	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDR1	NM_004065	exon1	c.445delG	p.G149fs	.	.	213.0	14.0	131.0	0.0	.	58	.	.	Atlas-INDEL
POLQ	10721	hgsc.bcm.edu	hg19	3	121192306	121192306	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	POLQ	NM_199420	exon21	c.6435delA	p.P2145fs	.	.	111.0	11.0	102.0	0.0	.	273	.	.	Atlas-INDEL
TCN1	6947	hgsc.bcm.edu	hg19	11	59626598	59626598	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TCN1	NM_001062	exon5	c.700delG	p.E234fs	.	.	124.0	10.0	98.0	0.0	.	64	.	.	Atlas-INDEL
SAMM50	25813	hgsc.bcm.edu	hg19	22	44368791	44368791	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SAMM50	NM_015380	exon6	c.469delG	p.E157fs	.	.	138.0	10.0	122.0	0.0	.	30	.	.	Atlas-INDEL
MUC16	94025	hgsc.bcm.edu	hg19	19	9085053	9085053	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MUC16	NM_024690	exon1	c.6763delT	p.S2255fs	.	.	110.0	10.0	89.0	0.0	.	4315	.	.	Atlas-INDEL
CLTC	1213	hgsc.bcm.edu	hg19	17	57756782	57756782	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLTC	NM_004859	exon18	c.2820delC	p.F940fs	.	.	189.0	13.0	169.0	0.0	.	124	.	.	Atlas-INDEL
KRTAP10-4	386672	hgsc.bcm.edu	hg19	21	45993943	45993943	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KRTAP10-4	NM_198687	exon1	c.307delT	p.S103fs	.	.	262.0	17.0	230.0	0.0	.	44	.	.	Atlas-INDEL
FFAR4	338557	hgsc.bcm.edu	hg19	10	95347278	95347278	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	O3FAR1,colon,carcinoma,0,1	.	NM_181745	exon4	c.1045delA	p.I349fs	.	.	195.0	12.0	170.0	0.0	.	.	.	.	Atlas-INDEL
FAT1	2195	hgsc.bcm.edu	hg19	4	187539266	187539266	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAT1	NM_005245	exon10	c.8475delA	p.G2825fs	.	.	129.0	11.0	153.0	0.0	.	500	.	.	Atlas-INDEL
FBXO46	23403	hgsc.bcm.edu	hg19	19	46216117	46216117	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FBXO46	NM_001080469	exon2	c.638delT	p.V213fs	.	.	130.0	10.0	130.0	0.0	.	34	.	.	Atlas-INDEL
MX2	4600	hgsc.bcm.edu	hg19	21	42767625	42767625	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MX2	NM_002463	exon7	c.982delC	p.R328fs	.	.	151.0	10.0	138.0	0.0	.	84	.	.	Atlas-INDEL
CHRNA4	1137	hgsc.bcm.edu	hg19	20	61981195	61981195	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHRNA4	NM_000744	exon5	c.1569delA	p.P523fs	.	.	147.0	10.0	68.0	0.0	.	98	.	.	Atlas-INDEL
ADIPOR1	51094	hgsc.bcm.edu	hg19	1	202917518	202917518	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADIPOR1	NM_015999	exon3	c.173delA	p.Q58fs	.	.	130.0	10.0	80.0	0.0	.	32	.	.	Atlas-INDEL
YAP1	10413	hgsc.bcm.edu	hg19	11	101984981	101984981	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	YAP1	NM_001130145	exon2	c.427delA	p.T143fs	.	.	164.0	10.0	162.0	0.0	.	45	.	.	Atlas-INDEL
FLNA	2316	hgsc.bcm.edu	hg19	X	153596402	153596402	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FLNA	NM_001456	exon3	c.431delT	p.L144fs	.	.	182.0	11.0	122.0	0.0	.	373	.	.	Atlas-INDEL
SIRPB1	10326	hgsc.bcm.edu	hg19	20	1551499	1551499	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SIRPB1	NM_006065	exon4	c.1037delT	p.L346fs	.	.	161.0	10.0	115.0	0.0	.	83	.	.	Atlas-INDEL
RAB10	10890	hgsc.bcm.edu	hg19	2	26257589	26257589	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RAB10	NM_016131	exon1	c.111delC	p.T37fs	.	.	204.0	13.0	173.0	0.0	.	14	.	.	Atlas-INDEL
RIMBP3C	150221	hgsc.bcm.edu	hg19	22	21901827	21901827	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RIMBP3C	NM_001128633	exon1	c.3440delT	p.V1147fs	.	.	12.0	11.0	1.0	0.0	.	6	.	.	Atlas-INDEL
CIB3	117286	hgsc.bcm.edu	hg19	19	16275654	16275654	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	CIB3,NS,carcinoma,0,3	CIB3	NM_054113	exon5	c.418delC	p.L140X	.	.	167.0	15.0	157.0	0.0	.	35	.	.	Atlas-INDEL
AADACL4	343066	hgsc.bcm.edu	hg19	1	12704616	12704616	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AADACL4	NM_001013630	exon1	c.50delT	p.L17fs	.	.	189.0	12.0	153.0	0.0	.	48	.	.	Atlas-INDEL
ABCA13	154664	hgsc.bcm.edu	hg19	7	48391899	48391899	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ABCA13	NM_152701	exon31	c.10502delT	p.V3501fs	.	.	162.0	10.0	120.0	0.0	.	1192	.	.	Atlas-INDEL
ZNF451	26036	hgsc.bcm.edu	hg19	6	57012815	57012815	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF451	NM_001031623	exon10	c.1931delC	p.P644fs	.	.	157.0	10.0	78.0	0.0	.	181	.	.	Atlas-INDEL
PNKP	11284	hgsc.bcm.edu	hg19	19	50368611	50368611	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PNKP	NM_007254	exon4	c.272delA	p.D91fs	.	.	157.0	10.0	114.0	0.0	.	71	.	.	Atlas-INDEL
MYO18A	399687	hgsc.bcm.edu	hg19	17	27438464	27438464	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	MYO18A_ENST00000527372,colon,carcinoma,0,2	MYO18A	NM_078471	exon17	c.2879delG	p.R960fs	.	.	148.0	10.0	135.0	0.0	.	217	.	.	Atlas-INDEL
AP1B1	162	hgsc.bcm.edu	hg19	22	29736724	29736724	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AP1B1	NM_001127	exon14	c.1920delA	p.P640fs	.	.	137.0	11.0	114.0	0.0	.	72	.	.	Atlas-INDEL
NAALAD2	10003	hgsc.bcm.edu	hg19	11	89914834	89914834	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NAALAD2	NM_005467	exon17	c.1904delA	p.D635fs	.	.	163.0	11.0	148.0	0.0	.	113	.	.	Atlas-INDEL
SPG20	23111	hgsc.bcm.edu	hg19	13	36878657	36878657	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SPG20	NM_015087	exon9	c.1847delC	p.T616fs	.	.	162.0	10.0	143.0	0.0	.	87	.	.	Atlas-INDEL
RP1	6101	hgsc.bcm.edu	hg19	8	55539238	55539238	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RP1	NM_006269	exon4	c.2795delT	p.I932fs	.	.	170.0	11.0	68.0	0.0	.	429	.	.	Atlas-INDEL
CREBBP	1387	hgsc.bcm.edu	hg19	16	3777763	3777763	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CREBBP	NM_004380	exon31	c.7286delA	p.D2429fs	.	.	121.0	11.0	83.0	0.0	.	546	.	.	Atlas-INDEL
SIPA1L3	23094	hgsc.bcm.edu	hg19	19	38655235	38655235	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SIPA1L3	NM_015073	exon15	c.3896delA	p.D1299fs	.	.	191.0	12.0	176.0	0.0	.	150	.	.	Atlas-INDEL
HERC2	8924	hgsc.bcm.edu	hg19	15	28436339	28436339	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HERC2	NM_004667	exon54	c.8504delT	p.M2835fs	.	.	116.0	11.0	86.0	0.0	.	501	.	.	Atlas-INDEL
HSP90B1	7184	hgsc.bcm.edu	hg19	12	104331534	104331534	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HSP90B1	NM_003299	exon6	c.804delC	p.V268fs	.	.	179.0	11.0	162.0	0.0	.	72	.	.	Atlas-INDEL
WHSC1L1	54904	hgsc.bcm.edu	hg19	8	38146052	38146052	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WHSC1L1	NM_023034	exon19	c.3455delC	p.T1152fs	.	.	130.0	10.0	133.0	0.0	.	137	.	.	Atlas-INDEL
CEACAM3	1084	hgsc.bcm.edu	hg19	19	42314895	42314895	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CEACAM3	NM_001815	exon6	c.652delG	p.A218fs	.	.	166.0	13.0	131.0	0.0	.	37	.	.	Atlas-INDEL
ATP11C	286410	hgsc.bcm.edu	hg19	X	138869386	138869386	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATP11C	NM_001010986	exon15	c.1548delA	p.L516fs	.	.	147.0	10.0	149.0	0.0	.	319	.	.	Atlas-INDEL
C9orf53	51198	hgsc.bcm.edu	hg19	9	21967542	21967542	+	RNA	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	176.0	11.0	123.0	0.0	.	.	.	.	Atlas-INDEL
MYO18B	84700	hgsc.bcm.edu	hg19	22	26164213	26164213	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYO18B	NM_032608	exon4	c.329delA	p.E110fs	.	.	158.0	10.0	120.0	0.0	.	322	.	.	Atlas-INDEL
LAMP1	3916	hgsc.bcm.edu	hg19	13	113960838	113960838	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LAMP1	NM_005561	exon2	c.99delG	p.V33fs	.	.	162.0	10.0	152.0	0.0	.	41	.	.	Atlas-INDEL
DCHS1	8642	hgsc.bcm.edu	hg19	11	6647877	6647877	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DCHS1	NM_003737	exon15	c.6271delA	p.R2091fs	.	.	160.0	10.0	116.0	0.0	.	277	.	.	Atlas-INDEL
COL7A1	1294	hgsc.bcm.edu	hg19	3	48631052	48631052	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL7A1	NM_000094	exon3	c.345delC	p.G115fs	.	.	167.0	12.0	149.0	0.0	.	320	.	.	Atlas-INDEL
GLG1	2734	hgsc.bcm.edu	hg19	16	74525009	74525009	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GLG1	NM_001145667	exon8	c.1340delA	p.E447fs	.	.	182.0	12.0	185.0	0.0	.	106	.	.	Atlas-INDEL
DMRTB1	63948	hgsc.bcm.edu	hg19	1	53925136	53925136	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DMRTB1	NM_033067	exon1	c.9delC	p.D3fs	.	.	174.0	11.0	185.0	0.0	.	38	.	.	Atlas-INDEL
COL9A2	1298	hgsc.bcm.edu	hg19	1	40773421	40773421	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL9A2	NM_001852	exon18	c.909delA	p.P303fs	.	.	176.0	11.0	180.0	0.0	.	63	.	.	Atlas-INDEL
TNR	7143	hgsc.bcm.edu	hg19	1	175372615	175372615	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNR	NM_003285	exon4	c.638delT	p.V213fs	.	.	165.0	10.0	88.0	0.0	.	399	.	.	Atlas-INDEL
CREB1	1385	hgsc.bcm.edu	hg19	2	208442310	208442310	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CREB1	NM_134442	exon8	c.811delT	p.S271fs	.	.	181.0	12.0	139.0	0.0	.	21	.	.	Atlas-INDEL
CCDC168	643677	hgsc.bcm.edu	hg19	13	103383806	103383806	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001146197	exon4	c.19242delT	p.N6414fs	.	.	205.0	13.0	132.0	0.0	.	.	.	.	Atlas-INDEL
LIMCH1	22998	hgsc.bcm.edu	hg19	4	41668635	41668635	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LIMCH1	NM_014988	exon16	c.2193delC	p.D731fs	.	.	148.0	11.0	104.0	0.0	.	233	.	.	Atlas-INDEL
PLEKHA3	65977	hgsc.bcm.edu	hg19	2	179355529	179355529	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PLEKHA3	NM_019091	exon3	c.300delT	p.T100fs	.	.	192.0	14.0	131.0	0.0	.	25	.	.	Atlas-INDEL
ACACA	31	hgsc.bcm.edu	hg19	17	35487101	35487101	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ACACA	NM_198834	exon46	c.5724delC	p.G1908fs	.	.	192.0	13.0	200.0	0.0	.	395	.	.	Atlas-INDEL
TDRD1	56165	hgsc.bcm.edu	hg19	10	115987018	115987018	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TDRD1	NM_198795	exon23	c.3362delC	p.A1121fs	.	.	209.0	13.0	194.0	0.0	.	126	.	.	Atlas-INDEL
PXN	5829	hgsc.bcm.edu	hg19	12	120652962	120652962	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PXN	NM_001243756	exon7	c.1091delT	p.V364fs	.	.	210.0	13.0	249.0	0.0	.	69	.	.	Atlas-INDEL
HHLA1	10086	hgsc.bcm.edu	hg19	8	133116366	133116366	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HHLA1	NM_001145095	exon2	c.129delA	p.L43fs	.	.	187.0	14.0	79.0	0.0	.	35	.	.	Atlas-INDEL
PRAP1	118471	hgsc.bcm.edu	hg19	10	135165935	135165935	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRAP1	NM_145202	exon5	c.446delA	p.H149fs	.	.	163.0	10.0	114.0	0.0	.	20	.	.	Atlas-INDEL
STRN	6801	hgsc.bcm.edu	hg19	2	37129784	37129784	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	STRN	NM_003162	exon5	c.603delT	p.N201fs	.	.	202.0	15.0	145.0	0.0	.	71	.	.	Atlas-INDEL
ETV1	2115	hgsc.bcm.edu	hg19	7	14027750	14027750	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ETV1	NM_001163149	exon3	c.95delG	p.R32fs	.	.	185.0	12.0	189.0	0.0	.	138	.	.	Atlas-INDEL
IFT88	8100	hgsc.bcm.edu	hg19	13	21148532	21148532	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IFT88	NM_175605	exon4	c.34delC	p.Q12fs	.	.	322.0	21.0	211.0	0.0	.	83	.	.	Atlas-INDEL
CMYA5	202333	hgsc.bcm.edu	hg19	5	79031144	79031144	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CMYA5	NM_153610	exon2	c.6555delG	p.L2185fs	.	.	150.0	13.0	98.0	0.0	.	643	.	.	Atlas-INDEL
DDX49	54555	hgsc.bcm.edu	hg19	19	19030629	19030629	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DDX49	NM_019070	exon1	c.78delG	p.T26fs	.	.	164.0	10.0	143.0	0.0	.	37	.	.	Atlas-INDEL
ATP2C2	9914	hgsc.bcm.edu	hg19	16	84486788	84486788	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATP2C2	NM_014861	exon19	c.1875delC	p.S625fs	.	.	150.0	10.0	103.0	0.0	.	75	.	.	Atlas-INDEL
USP34	9736	hgsc.bcm.edu	hg19	2	61571112	61571112	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	USP34	NM_014709	exon16	c.2339delA	p.Q780fs	.	.	149.0	10.0	152.0	0.0	.	334	.	.	Atlas-INDEL
CYP4B1	1580	hgsc.bcm.edu	hg19	1	47284387	47284387	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CYP4B1	NM_001099772	exon12	c.1439delA	p.D480fs	.	.	156.0	10.0	163.0	0.0	.	81	.	.	Atlas-INDEL
NLRP6	171389	hgsc.bcm.edu	hg19	11	281492	281492	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NLRP6	NM_138329	exon4	c.1757delG	p.C586fs	.	.	153.0	10.0	124.0	0.0	.	4	.	.	Atlas-INDEL
TCP1	6950	hgsc.bcm.edu	hg19	6	160202000	160202000	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TCP1	NM_030752	exon8	c.941delG	p.R314fs	.	.	179.0	12.0	213.0	0.0	.	37	.	.	Atlas-INDEL
COL9A1	1297	hgsc.bcm.edu	hg19	6	71010083	71010083	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL9A1	NM_001851	exon3	c.96delT	p.P32fs	.	.	165.0	12.0	134.0	0.0	.	228	.	.	Atlas-INDEL
DHX40	79665	hgsc.bcm.edu	hg19	17	57656854	57656854	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DHX40	NM_024612	exon9	c.1094delT	p.F365fs	.	.	10.0	10.0	3.0	0.0	.	40	.	.	Atlas-INDEL
NCOA1	8648	hgsc.bcm.edu	hg19	2	24920612	24920612	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NCOA1	NM_147223	exon9	c.893delC	p.A298fs	.	.	182.0	11.0	101.0	0.0	.	210	.	.	Atlas-INDEL
U2AF1L4	199746	hgsc.bcm.edu	hg19	19	36236292	36236292	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	U2AF1L4	NM_144987	exon1	c.2delT	p.M1fs	.	.	146.0	12.0	124.0	0.0	.	34	.	.	Atlas-INDEL
SSC5D	284297	hgsc.bcm.edu	hg19	19	56002276	56002276	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,2	SSC5D	NM_001195267	exon6	c.723delT	p.C241fs	.	.	161.0	10.0	31.0	0.0	.	65	.	.	Atlas-INDEL
STRC	161497	hgsc.bcm.edu	hg19	15	43909880	43909880	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	STRC	NM_153700	exon2	c.740delT	p.L247fs	.	.	110.0	10.0	75.0	0.0	.	58	.	.	Atlas-INDEL
KRTAP5-10	387273	hgsc.bcm.edu	hg19	11	71276925	71276925	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KRTAP5-10	NM_001012710	exon1	c.291delT	p.C97fs	.	.	166.0	11.0	78.0	0.0	.	37	.	.	Atlas-INDEL
ABL1	25	hgsc.bcm.edu	hg19	9	133759994	133759995	+	Frame_Shift_Del	DEL	GA	GA	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ABL1	NM_007313	exon11	c.2373_2374del	p.791_792del	.	.	32.0	13.0	36.0	0.0	.	1632	.	.	Atlas-Indel,Pindel
LYST	1130	hgsc.bcm.edu	hg19	1	235880039	235880039	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LYST	NM_000081	exon41	c.9601delG	p.E3201fs	.	.	220.0	15.0	103.0	0.0	.	370	.	.	Atlas-INDEL
CCDC171	203238	hgsc.bcm.edu	hg19	9	15623298	15623298	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_173550	exon7	c.708delG	p.K236fs	.	.	180.0	11.0	147.0	0.0	.	.	.	.	Atlas-INDEL
CCDC11	220136	hgsc.bcm.edu	hg19	18	47787507	47787507	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CCDC11	NM_145020	exon3	c.401delC	p.T134fs	.	.	155.0	11.0	88.0	0.0	.	59	.	.	Atlas-INDEL
FAM21B	55747	hgsc.bcm.edu	hg19	10	47915896	47915896	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM21B	NM_018232	exon15	c.1302delC	p.S434fs	.	.	190.0	16.0	203.0	0.0	.	31	.	.	Atlas-INDEL
TAF2	6873	hgsc.bcm.edu	hg19	8	120759116	120759116	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TAF2	NM_003184	exon23	c.2938delG	p.G980fs	.	.	173.0	13.0	74.0	0.0	.	204	.	.	Atlas-INDEL
SH3D21	79729	hgsc.bcm.edu	hg19	1	36785322	36785322	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SH3D21	NM_001162530	exon14	c.1057delA	p.T353fs	.	.	247.0	16.0	228.0	0.0	.	73	.	.	Atlas-INDEL
PHTF2	57157	hgsc.bcm.edu	hg19	7	77579071	77579071	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PHTF2	NM_001127357	exon15	c.1933delC	p.L645fs	.	.	201.0	13.0	143.0	0.0	.	104	.	.	Atlas-INDEL
DHX57	90957	hgsc.bcm.edu	hg19	2	39033812	39033812	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DHX57	NM_198963	exon22	c.3706delC	p.Q1236fs	.	.	183.0	12.0	124.0	0.0	.	127	.	.	Atlas-INDEL
DSC2	1824	hgsc.bcm.edu	hg19	18	28649035	28649035	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DSC2	NM_024422	exon15	c.2334delC	p.N778fs	.	.	156.0	11.0	119.0	0.0	.	168	.	.	Atlas-INDEL
MOV10	4343	hgsc.bcm.edu	hg19	1	113243060	113243060	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MOV10	NM_020963	exon21	c.2942delT	p.L981fs	.	.	173.0	12.0	169.0	0.0	.	74	.	.	Atlas-INDEL
CCDC168	643677	hgsc.bcm.edu	hg19	13	103394930	103394930	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001146197	exon4	c.8118delA	p.L2706fs	.	.	143.0	10.0	94.0	0.0	.	.	.	.	Atlas-INDEL
TRIM33	51592	hgsc.bcm.edu	hg19	1	114942160	114942160	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	TRIM33	NM_033020	exon18	c.3040delC	p.H1014fs	.	.	188.0	13.0	207.0	0.0	.	115	.	.	Atlas-INDEL
NOBOX	135935	hgsc.bcm.edu	hg19	7	144096920	144096920	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOBOX	NM_001080413	exon6	c.1085delT	p.M362fs	.	.	161.0	12.0	168.0	0.0	.	130	.	.	Atlas-INDEL
TMEM244	253582	hgsc.bcm.edu	hg19	6	130166960	130166960	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001010876	exon2	c.72delC	p.F24fs	.	.	151.0	10.0	122.0	0.0	.	.	.	.	Atlas-INDEL
POU5F1	5460	hgsc.bcm.edu	hg19	6	31138149	31138149	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	POU5F1	NM_002701	exon1	c.250delC	p.L84X	.	.	200.0	13.0	78.0	0.0	.	25	.	.	Atlas-INDEL
TRPV3	162514	hgsc.bcm.edu	hg19	17	3424284	3424284	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TRPV3	NM_001258205	exon14	c.1794delG	p.L598fs	.	.	178.0	12.0	160.0	0.0	.	85	.	.	Atlas-INDEL
DCLRE1C	64421	hgsc.bcm.edu	hg19	10	14950883	14950883	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DCLRE1C	NM_001033855	exon14	c.1604delA	p.Q535fs	.	.	132.0	12.0	101.0	0.0	.	136	.	.	Atlas-INDEL
NLGN2	57555	hgsc.bcm.edu	hg19	17	7319293	7319293	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NLGN2	NM_020795	exon6	c.1500delC	p.H500fs	.	.	154.0	10.0	172.0	0.0	.	61	.	.	Atlas-INDEL
C3orf35	339883	hgsc.bcm.edu	hg19	3	37476531	37476531	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C3orf35	NM_178339	exon6	c.422delC	p.T141fs	.	.	138.0	10.0	95.0	0.0	.	21	.	.	Atlas-INDEL
C4orf47	441054	hgsc.bcm.edu	hg19	4	186353241	186353241	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C4orf47	NM_001114357	exon2	c.205delA	p.I69fs	.	.	162.0	11.0	175.0	0.0	.	13	.	.	Atlas-INDEL
DNAH14	127602	hgsc.bcm.edu	hg19	1	225328686	225328686	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNAH14	NM_001373	exon27	c.4419delT	p.L1473fs	.	.	154.0	10.0	89.0	0.0	.	300	.	.	Atlas-INDEL
HERC2	8924	hgsc.bcm.edu	hg19	15	28366565	28366565	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HERC2	NM_004667	exon86	c.13200delC	p.F4400fs	.	.	162.0	10.0	132.0	0.0	.	501	.	.	Atlas-INDEL
GPR158	57512	hgsc.bcm.edu	hg19	10	25887118	25887118	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR158	NM_020752	exon11	c.2562delT	p.G854fs	.	.	148.0	11.0	93.0	0.0	.	255	.	.	Atlas-INDEL
NOBOX	135935	hgsc.bcm.edu	hg19	7	144096122	144096122	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOBOX	NM_001080413	exon8	c.1391delA	p.Q464fs	.	.	193.0	13.0	223.0	0.0	.	130	.	.	Atlas-INDEL
ZFPM2	23414	hgsc.bcm.edu	hg19	8	106573666	106573666	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZFPM2	NM_012082	exon4	c.376delT	p.W126fs	.	.	155.0	11.0	49.0	0.0	.	219	.	.	Atlas-INDEL
FSIP1	161835	hgsc.bcm.edu	hg19	15	39910069	39910069	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FSIP1	NM_152597	exon11	c.1567delA	p.M523fs	.	.	198.0	13.0	122.0	0.0	.	53	.	.	Atlas-INDEL
ANKRD20A4	728747	hgsc.bcm.edu	hg19	9	69386012	69386012	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANKRD20A4	NM_001098805	exon3	c.448delG	p.E150fs	.	.	91.0	11.0	99.0	0.0	.	38	.	.	Atlas-INDEL
CNGB1	1258	hgsc.bcm.edu	hg19	16	57953155	57953155	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CNGB1	NM_001297	exon20	c.1806delA	p.P602fs	.	.	228.0	14.0	200.0	0.0	.	105	.	.	Atlas-INDEL
NPHP3	27031	hgsc.bcm.edu	hg19	3	132438560	132438560	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NPHP3	NM_153240	exon2	c.509delG	p.R170fs	.	.	152.0	11.0	122.0	0.0	.	110	.	.	Atlas-INDEL
HLTF	6596	hgsc.bcm.edu	hg19	3	148778638	148778638	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HLTF	NM_139048	exon11	c.1169delC	p.T390fs	.	.	143.0	10.0	120.0	0.0	.	87	.	.	Atlas-INDEL
SLC44A5	204962	hgsc.bcm.edu	hg19	1	75684228	75684228	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC44A5	NM_152697	exon17	c.1477delC	p.P493fs	.	.	136.0	10.0	113.0	0.0	.	231	.	.	Atlas-INDEL
MYOCD	93649	hgsc.bcm.edu	hg19	17	12666622	12666622	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYOCD	NM_001146312	exon14	c.2621delT	p.L874fs	.	.	179.0	11.0	170.0	0.0	.	291	.	.	Atlas-INDEL
DNAH6	1768	hgsc.bcm.edu	hg19	2	84913642	84913642	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNAH6	NM_001370	exon44	c.7097delA	p.Y2366fs	.	.	254.0	16.0	251.0	0.0	.	194	.	.	Atlas-INDEL
CLEC4F	165530	hgsc.bcm.edu	hg19	2	71043906	71043906	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLEC4F	NM_001258027	exon4	c.608delG	p.S203fs	.	.	172.0	11.0	149.0	0.0	.	95	.	.	Atlas-INDEL
FOXD4L1	200350	hgsc.bcm.edu	hg19	2	114257385	114257385	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FOXD4L1	NM_012184	exon1	c.551delA	p.D184fs	.	.	181.0	11.0	125.0	0.0	.	48	.	.	Atlas-INDEL
ADRBK1	156	hgsc.bcm.edu	hg19	11	67048975	67048975	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADRBK1	NM_001619	exon9	c.692delA	p.Q231fs	.	.	154.0	10.0	91.0	0.0	.	51	.	.	Atlas-INDEL
ATRX	546	hgsc.bcm.edu	hg19	X	76938413	76938413	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATRX	NM_000489	exon9	c.2336delG	p.R779fs	.	.	197.0	12.0	134.0	0.0	.	833	.	.	Atlas-INDEL
LARP1	23367	hgsc.bcm.edu	hg19	5	154181822	154181822	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LARP1	NM_015315	exon11	c.1740delA	p.P580fs	.	.	157.0	16.0	119.0	0.0	.	187	.	.	Atlas-INDEL
NCAPG	64151	hgsc.bcm.edu	hg19	4	17816898	17816898	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NCAPG	NM_022346	exon5	c.691delG	p.V231fs	.	.	111.0	10.0	103.0	0.0	.	76	.	.	Atlas-INDEL
CAMK2A	815	hgsc.bcm.edu	hg19	5	149636381	149636381	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CAMK2A	NM_171825	exon5	c.287delA	p.E96fs	.	.	177.0	12.0	155.0	0.0	.	42	.	.	Atlas-INDEL
ZNF667	63934	hgsc.bcm.edu	hg19	19	56953129	56953129	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF667	NM_022103	exon5	c.1236delG	p.K412fs	.	.	145.0	10.0	129.0	0.0	.	95	.	.	Atlas-INDEL
CBLB	868	hgsc.bcm.edu	hg19	3	105452913	105452913	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CBLB	NM_170662	exon9	c.1144delG	p.D382fs	.	.	250.0	15.0	216.0	0.0	.	118	.	.	Atlas-INDEL
VPS13C	54832	hgsc.bcm.edu	hg19	15	62243167	62243167	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	VPS13C	NM_020821	exon40	c.4514delT	p.L1505fs	.	.	250.0	16.0	146.0	0.0	.	506	.	.	Atlas-INDEL
SPATA25	128497	hgsc.bcm.edu	hg19	20	44515612	44515612	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_080608	exon2	c.229delA	p.T77fs	.	.	187.0	15.0	127.0	0.0	.	.	.	.	Atlas-INDEL
MCM3AP	8888	hgsc.bcm.edu	hg19	21	47700452	47700452	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MCM3AP	NM_003906	exon3	c.1482delG	p.L494fs	.	.	261.0	16.0	228.0	0.0	.	146	.	.	Atlas-INDEL
IL17RE	132014	hgsc.bcm.edu	hg19	3	9952818	9952818	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IL17RE	NM_153483	exon11	c.1105delG	p.V369fs	.	.	210.0	13.0	158.0	0.0	.	62	.	.	Atlas-INDEL
PPAT	5471	hgsc.bcm.edu	hg19	4	57267544	57267544	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPAT	NM_002703	exon7	c.839delG	p.C280fs	.	.	179.0	11.0	190.0	0.0	.	41	.	.	Atlas-INDEL
PCMT1	5110	hgsc.bcm.edu	hg19	6	150123486	150123486	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCMT1	NM_005389	exon7	c.828delT	p.D276fs	.	.	182.0	11.0	164.0	0.0	.	27	.	.	Atlas-INDEL
C4A	720	hgsc.bcm.edu	hg19	6	31964732	31964732	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C4A	NM_007293	exon29	c.3802delG	p.A1268fs	.	.	150.0	10.0	88.0	0.0	.	15	.	.	Atlas-INDEL
SCYL2	55681	hgsc.bcm.edu	hg19	12	100729661	100729661	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SCYL2	NM_017988	exon16	c.2001delC	p.D667fs	.	.	148.0	10.0	98.0	0.0	.	99	.	.	Atlas-INDEL
MLL3	58508	hgsc.bcm.edu	hg19	7	151874093	151874093	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MLL3	NM_170606	exon38	c.8446delT	p.S2816fs	.	.	221.0	16.0	158.0	0.0	.	1564	.	.	Atlas-INDEL
PROB1	389333	hgsc.bcm.edu	hg19	5	138727890	138727890	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001161546	exon1	c.2882delT	p.L961fs	.	.	127.0	10.0	55.0	0.0	.	.	.	.	Atlas-INDEL
MPG	4350	hgsc.bcm.edu	hg19	16	129299	129299	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	MPG	NM_002434	exon2	c.7delA	p.T3fs	.	.	177.0	11.0	159.0	0.0	.	26	.	.	Atlas-INDEL
TPPP2	122664	hgsc.bcm.edu	hg19	14	21498757	21498757	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	TPPP2	NM_173846	exon2	c.16delG	p.E6fs	.	.	181.0	11.0	172.0	0.0	.	22	.	.	Atlas-INDEL
RYR1	6261	hgsc.bcm.edu	hg19	19	39008261	39008261	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RYR1	NM_001042723	exon66	c.9947delT	p.L3316fs	.	.	234.0	16.0	155.0	0.0	.	708	.	.	Atlas-INDEL
FAT3	120114	hgsc.bcm.edu	hg19	11	92533028	92533028	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAT3	NM_001008781	exon9	c.6848delA	p.N2283fs	.	.	120.0	10.0	86.0	0.0	.	1822	.	.	Atlas-INDEL
PDE1C	5137	hgsc.bcm.edu	hg19	7	31793035	31793035	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PDE1C	NM_001191058	exon19	c.2274delG	p.K758fs	.	.	189.0	13.0	181.0	0.0	.	465	.	.	Atlas-INDEL
TUBB3	10381	hgsc.bcm.edu	hg19	16	90001894	90001894	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TUBB3	NM_006086	exon4	c.1034delT	p.I345fs	.	.	168.0	12.0	125.0	0.0	.	49	.	.	Atlas-INDEL
TDRD6	221400	hgsc.bcm.edu	hg19	6	46660975	46660975	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TDRD6	NM_001168359	exon1	c.5109delT	p.I1703fs	.	.	164.0	10.0	84.0	0.0	.	205	.	.	Atlas-INDEL
FSTL4	23105	hgsc.bcm.edu	hg19	5	132553042	132553042	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FSTL4	NM_015082	exon13	c.1488delT	p.N496fs	.	.	180.0	12.0	137.0	0.0	.	74	.	.	Atlas-INDEL
EFTUD2	9343	hgsc.bcm.edu	hg19	17	42929803	42929803	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EFTUD2	NM_004247	exon26	c.2690delC	p.S897fs	.	.	156.0	13.0	157.0	0.0	.	85	.	.	Atlas-INDEL
DHX34	9704	hgsc.bcm.edu	hg19	19	47884149	47884149	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DHX34	NM_014681	exon15	c.3058delA	p.T1020fs	.	.	158.0	11.0	103.0	0.0	.	98	.	.	Atlas-INDEL
NEDD9	4739	hgsc.bcm.edu	hg19	6	11190264	11190264	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NEDD9	NM_001142393	exon6	c.1839delT	p.P613fs	.	.	164.0	13.0	112.0	0.0	.	191	.	.	Atlas-INDEL
VCX3B	425054	hgsc.bcm.edu	hg19	X	8433809	8433809	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	VCX3B	NM_001001888	exon3	c.125delG	p.G42fs	.	.	229.0	15.0	135.0	0.0	.	34	.	.	Atlas-INDEL
XIRP2	129446	hgsc.bcm.edu	hg19	2	168105629	168105629	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	XIRP2,NS,carcinoma,0,1	XIRP2	NM_152381	exon9	c.7726delC	p.Q2576fs	.	.	182.0	11.0	134.0	0.0	.	914	.	.	Atlas-INDEL
RBM46	166863	hgsc.bcm.edu	hg19	4	155720193	155720193	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RBM46	NM_144979	exon4	c.878delG	p.G293fs	.	.	148.0	10.0	149.0	0.0	.	76	.	.	Atlas-INDEL
TGM6	343641	hgsc.bcm.edu	hg19	20	2384126	2384126	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TGM6	NM_198994	exon8	c.1072delA	p.T358fs	.	.	154.0	10.0	120.0	0.0	.	126	.	.	Atlas-INDEL
NTNG2	84628	hgsc.bcm.edu	hg19	9	135042407	135042407	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NTNG2	NM_032536	exon2	c.188delA	p.D63fs	.	.	200.0	12.0	164.0	0.0	.	66	.	.	Atlas-INDEL
FAM120AOS	158293	hgsc.bcm.edu	hg19	9	96209929	96209929	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	FAM120AOS,NS,carcinoma,0,1	FAM120AOS	NM_198841	exon3	c.736delC	p.P246fs	.	.	156.0	12.0	149.0	0.0	.	13	.	.	Atlas-INDEL
SPATA31A5	727905	hgsc.bcm.edu	hg19	9	41506041	41506041	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001113541	exon4	c.3312delT	p.F1104fs	.	.	175.0	11.0	105.0	0.0	.	.	.	.	Atlas-INDEL
CTIF	9811	hgsc.bcm.edu	hg19	18	46288021	46288021	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CTIF	NM_001142397	exon10	c.1337delA	p.E446fs	.	.	141.0	11.0	109.0	0.0	.	102	.	.	Atlas-INDEL
FAT1	2195	hgsc.bcm.edu	hg19	4	187628769	187628769	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAT1	NM_005245	exon2	c.2214delC	p.F738fs	.	.	124.0	10.0	123.0	0.0	.	500	.	.	Atlas-INDEL
TNR	7143	hgsc.bcm.edu	hg19	1	175375844	175375844	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNR	NM_003285	exon3	c.8delC	p.A3fs	.	.	166.0	10.0	97.0	0.0	.	399	.	.	Atlas-INDEL
DONSON	29980	hgsc.bcm.edu	hg19	21	34954281	34954281	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DONSON	NM_017613	exon7	c.1128delG	p.K376fs	.	.	164.0	11.0	195.0	0.0	.	34	.	.	Atlas-INDEL
COL19A1	1310	hgsc.bcm.edu	hg19	6	70610184	70610184	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL19A1	NM_001858	exon4	c.219delT	p.D73fs	.	.	164.0	11.0	163.0	0.0	.	232	.	.	Atlas-INDEL
ELF1	1997	hgsc.bcm.edu	hg19	13	41523943	41523943	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ELF1	NM_172373	exon5	c.529delG	p.G177fs	.	.	270.0	17.0	214.0	0.0	.	65	.	.	Atlas-INDEL
AHNAK2	113146	hgsc.bcm.edu	hg19	14	105418454	105418454	+	Frame_Shift_Del	DEL	T	T	-	rs71975166		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AHNAK2	NM_138420	exon7	c.3335delG	p.S1112fs	.	.	177.0	11.0	153.0	0.0	.	719	.	.	Atlas-INDEL
OR5T3	390154	hgsc.bcm.edu	hg19	11	56020026	56020026	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR5T3	NM_001004747	exon1	c.350delC	p.A117fs	.	.	157.0	10.0	100.0	0.0	.	98	.	.	Atlas-INDEL
HTR1E	3354	hgsc.bcm.edu	hg19	6	87725971	87725971	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HTR1E	NM_000865	exon2	c.918delA	p.P306fs	.	.	200.0	12.0	195.0	0.0	.	89	.	.	Atlas-INDEL
KL	9365	hgsc.bcm.edu	hg19	13	33628034	33628034	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KL	NM_004795	exon2	c.949delC	p.Q317fs	.	.	144.0	10.0	122.0	0.0	.	106	.	.	Atlas-INDEL
KDELC1	79070	hgsc.bcm.edu	hg19	13	103449216	103449216	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KDELC1	NM_024089	exon2	c.327delT	p.N109fs	.	.	147.0	11.0	117.0	0.0	.	66	.	.	Atlas-INDEL
SPATA31A6	389730	hgsc.bcm.edu	hg19	9	43625186	43625186	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	FAM75A6,bladder,carcinoma,0,1	.	NM_001145196	exon4	c.3502delC	p.Q1168fs	.	.	284.0	19.0	362.0	0.0	.	.	.	.	Atlas-INDEL
BCL11A	53335	hgsc.bcm.edu	hg19	2	60688969	60688969	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BCL11A	NM_022893	exon4	c.1079delT	p.L360fs	.	.	147.0	10.0	147.0	0.0	.	298	.	.	Atlas-INDEL
IGF2BP3	10643	hgsc.bcm.edu	hg19	7	23387322	23387322	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IGF2BP3	NM_006547	exon7	c.716delC	p.A239fs	.	.	206.0	14.0	166.0	0.0	.	71	.	.	Atlas-INDEL
APBA2	321	hgsc.bcm.edu	hg19	15	29346583	29346583	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	APBA2	NM_005503	exon3	c.495delG	p.L165fs	.	.	159.0	10.0	159.0	0.0	.	132	.	.	Atlas-INDEL
PAK2	5062	hgsc.bcm.edu	hg19	3	196541368	196541368	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PAK2	NM_002577	exon11	c.981delT	p.A327fs	.	.	222.0	14.0	152.0	0.0	.	113	.	.	Atlas-INDEL
ARF1	375	hgsc.bcm.edu	hg19	1	228284858	228284858	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	ARF1	NM_001024228	exon2	c.42delC	p.G14fs	.	.	162.0	10.0	105.0	0.0	.	24	.	.	Atlas-INDEL
PRR3	80742	hgsc.bcm.edu	hg19	6	30525950	30525950	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRR3	NM_025263	exon2	c.129delT	p.P43fs	.	.	135.0	12.0	91.0	0.0	.	5	.	.	Atlas-Indel,Pindel
SIPA1L1	26037	hgsc.bcm.edu	hg19	14	72196875	72196875	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SIPA1L1	NM_015556	exon18	c.4780delA	p.R1594fs	.	.	185.0	13.0	167.0	0.0	.	219	.	.	Atlas-INDEL
TTN	7273	hgsc.bcm.edu	hg19	2	179391906	179391906	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTN	NM_001267550	exon363	c.107810delT	p.I35937fs	.	.	281.0	17.0	221.0	0.0	.	18412	.	.	Atlas-INDEL
CLK2	1196	hgsc.bcm.edu	hg19	1	155240721	155240721	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLK2	NM_003993	exon2	c.49delA	p.S17fs	.	.	174.0	12.0	93.0	0.0	.	55	.	.	Atlas-INDEL
ZNF217	7764	hgsc.bcm.edu	hg19	20	52193620	52193620	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF217	NM_006526	exon3	c.1684delG	p.D562fs	.	.	126.0	12.0	81.0	0.0	.	227	.	.	Atlas-INDEL
GPR22	2845	hgsc.bcm.edu	hg19	7	107115730	107115730	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR22	NM_005295	exon3	c.1224delT	p.P408fs	.	.	163.0	10.0	118.0	0.0	.	43	.	.	Atlas-INDEL
CDC73	79577	hgsc.bcm.edu	hg19	1	193111006	193111006	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDC73	NM_024529	exon7	c.538delG	p.E180fs	.	.	153.0	10.0	103.0	0.0	.	163	.	.	Atlas-INDEL
CLTCL1	8218	hgsc.bcm.edu	hg19	22	19209481	19209481	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	CLTCL1,NS,carcinoma,0,1	CLTCL1	NM_001835	exon16	c.2555delG	p.R852fs	.	.	165.0	12.0	112.0	0.0	.	115	.	.	Atlas-INDEL
CNTFR	1271	hgsc.bcm.edu	hg19	9	34556395	34556395	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CNTFR	NM_147164	exon7	c.627delT	p.N209fs	.	.	140.0	10.0	90.0	0.0	.	46	.	.	Atlas-INDEL
FAM184B	27146	hgsc.bcm.edu	hg19	4	17660011	17660011	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM184B	NM_015688	exon10	c.2000delT	p.L667fs	.	.	156.0	10.0	145.0	0.0	.	38	.	.	Atlas-INDEL
OGFR	11054	hgsc.bcm.edu	hg19	20	61444462	61444462	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	OGFR,NS,carcinoma,0,1	OGFR	NM_007346	exon7	c.1494delC	p.N498fs	.	.	152.0	10.0	63.0	0.0	.	63	.	.	Atlas-INDEL
SEMG1	6406	hgsc.bcm.edu	hg19	20	43836178	43836178	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SEMG1	NM_003007	exon2	c.239delG	p.R80fs	.	.	280.0	17.0	156.0	0.0	.	71	.	.	Atlas-INDEL
SPAG1	6674	hgsc.bcm.edu	hg19	8	101199429	101199429	+	Frame_Shift_Del	DEL	T	T	-	rs34763241		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SPAG1	NM_003114	exon8	c.782delC	p.A261fs	.	.	156.0	10.0	87.0	0.0	.	80	.	.	Atlas-INDEL
ZNF527	84503	hgsc.bcm.edu	hg19	19	37879579	37879579	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF527	NM_032453	exon5	c.627delT	p.Y209X	.	.	151.0	10.0	87.0	0.0	.	78	.	.	Atlas-INDEL
MCCC1	56922	hgsc.bcm.edu	hg19	3	182788998	182788998	+	Splice_Site	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MCCC1	NM_020166	exon7	c.639+1A>-	.	.	.	250.0	17.0	144.0	0.0	.	87	.	.	Atlas-INDEL
TM6SF1	53346	hgsc.bcm.edu	hg19	15	83790732	83790732	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TM6SF1	NM_001144903	exon5	c.457delG	p.V153fs	.	.	220.0	15.0	148.0	0.0	.	38	.	.	Atlas-INDEL
C10orf105	414152	hgsc.bcm.edu	hg19	10	73476077	73476077	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C10orf105	NM_001168390	exon2	c.19delA	p.S7fs	.	.	178.0	11.0	182.0	0.0	.	11	.	.	Atlas-INDEL
PDE12	201626	hgsc.bcm.edu	hg19	3	57545384	57545384	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PDE12	NM_177966	exon3	c.1482delT	p.C494fs	.	.	211.0	13.0	166.0	0.0	.	32	.	.	Atlas-INDEL
DDX58	23586	hgsc.bcm.edu	hg19	9	32488833	32488833	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DDX58	NM_014314	exon7	c.853delT	p.F285fs	.	.	187.0	12.0	140.0	0.0	.	82	.	.	Atlas-INDEL
ANKRD26	22852	hgsc.bcm.edu	hg19	10	27324168	27324168	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANKRD26	NM_014915	exon24	c.3212delG	p.S1071fs	.	.	135.0	10.0	138.0	0.0	.	179	.	.	Atlas-INDEL
PAPOLA	10914	hgsc.bcm.edu	hg19	14	96991682	96991682	+	Frame_Shift_Del	DEL	A	A	-	rs35783174		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PAPOLA	NM_001252006	exon4	c.284delG	p.G95fs	.	.	135.0	10.0	112.0	0.0	.	58	.	.	Atlas-INDEL
AZI2	64343	hgsc.bcm.edu	hg19	3	28373874	28373874	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	AZI2,NS,carcinoma,0,1	AZI2	NM_001134432	exon6	c.634delC	p.L212X	.	.	199.0	16.0	141.0	0.0	.	33	.	.	Atlas-INDEL
UBE2E1	7324	hgsc.bcm.edu	hg19	3	23929187	23929187	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UBE2E1	NM_003341	exon4	c.332delC	p.P111fs	.	.	179.0	11.0	139.0	0.0	.	15	.	.	Atlas-INDEL
POLR1A	25885	hgsc.bcm.edu	hg19	2	86265933	86265933	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	POLR1A	NM_015425	exon27	c.3925delC	p.Q1309fs	.	.	220.0	14.0	157.0	0.0	.	137	.	.	Atlas-INDEL
CECR1	51816	hgsc.bcm.edu	hg19	22	17690247	17690247	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CECR1	NM_017424	exon1	c.322delG	p.G108fs	.	.	161.0	10.0	163.0	0.0	.	77	.	.	Atlas-INDEL
SLC3A2	6520	hgsc.bcm.edu	hg19	11	62649372	62649372	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC3A2	NM_001012662	exon5	c.737delA	p.K246fs	.	.	122.0	10.0	99.0	0.0	.	55	.	.	Atlas-INDEL
CPSF3L	54973	hgsc.bcm.edu	hg19	1	1256455	1256455	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CPSF3L	NM_001256456	exon4	c.66delC	p.G22fs	.	.	199.0	12.0	194.0	0.0	.	33	.	.	Atlas-INDEL
GOLGA2	2801	hgsc.bcm.edu	hg19	9	131036199	131036199	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GOLGA2	NM_004486	exon2	c.138delG	p.K46fs	.	.	187.0	14.0	182.0	0.0	.	69	.	.	Atlas-INDEL
TBX10	347853	hgsc.bcm.edu	hg19	11	67402373	67402373	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TBX10	NM_005995	exon3	c.292delT	p.F98fs	.	.	178.0	11.0	107.0	0.0	.	25	.	.	Atlas-INDEL
PLAU	5328	hgsc.bcm.edu	hg19	10	75673438	75673438	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	PLAU	NM_002658	exon7	c.601delC	p.R201fs	.	.	186.0	12.0	156.0	0.0	.	47	.	.	Atlas-INDEL
TAOK2	9344	hgsc.bcm.edu	hg19	16	29998911	29998911	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TAOK2	NM_016151	exon16	c.3317delT	p.V1106fs	.	.	179.0	13.0	104.0	0.0	.	142	.	.	Atlas-INDEL
SLC38A11	151258	hgsc.bcm.edu	hg19	2	165755103	165755103	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC38A11	NM_001199148	exon11	c.1066delG	p.G356fs	.	.	179.0	11.0	135.0	0.0	.	41	.	.	Atlas-INDEL
ITGB8	3696	hgsc.bcm.edu	hg19	7	20438514	20438514	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ITGB8	NM_002214	exon9	c.1177delG	p.E393fs	.	.	181.0	12.0	135.0	0.0	.	159	.	.	Atlas-INDEL
ADCY6	112	hgsc.bcm.edu	hg19	12	49170245	49170245	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADCY6	NM_020983	exon7	c.1502delT	p.L501fs	.	.	104.0	10.0	128.0	0.0	.	81	.	.	Atlas-INDEL
MIR135A1	406925	hgsc.bcm.edu	hg19	3	52328238	52328238	+	RNA	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	152.0	10.0	164.0	0.0	.	.	.	.	Atlas-INDEL
PPP4R1L	55370	hgsc.bcm.edu	hg19	20	56826860	56826860	+	RNA	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPP4R1L	.	.	.	.	.	.	286.0	20.0	173.0	0.0	.	1	.	.	Atlas-INDEL
EDAR	10913	hgsc.bcm.edu	hg19	2	109546604	109546604	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	EDAR	NM_022336	exon3	c.147delG	p.P49fs	.	.	258.0	17.0	196.0	0.0	.	49	.	.	Atlas-INDEL
APEX2	27301	hgsc.bcm.edu	hg19	X	55033694	55033694	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	APEX2	NM_014481	exon6	c.1382delC	p.A461fs	.	.	147.0	10.0	122.0	0.0	.	50	.	.	Atlas-INDEL
SLC1A2	6506	hgsc.bcm.edu	hg19	11	35333900	35333900	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC1A2	NM_004171	exon4	c.407delT	p.V136fs	.	.	157.0	11.0	140.0	0.0	.	54	.	.	Atlas-INDEL
MAPK4	5596	hgsc.bcm.edu	hg19	18	48190827	48190827	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAPK4	NM_002747	exon2	c.498delT	p.I166fs	.	.	157.0	10.0	106.0	0.0	.	75	.	.	Atlas-INDEL
C1orf200	644997	hgsc.bcm.edu	hg19	1	9713912	9713912	+	RNA	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C1orf200	.	.	.	.	.	.	181.0	11.0	166.0	0.0	.	19	.	.	Atlas-INDEL
MYNN	55892	hgsc.bcm.edu	hg19	3	169504444	169504444	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYNN	NM_018657	exon8	c.1810delA	p.I604fs	.	.	154.0	11.0	137.0	0.0	.	36	.	.	Atlas-INDEL
MME	4311	hgsc.bcm.edu	hg19	3	154834710	154834710	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MME	NM_007287	exon7	c.588delG	p.G196fs	.	.	221.0	14.0	133.0	0.0	.	133	.	.	Atlas-INDEL
LOC285501	0	hgsc.bcm.edu	hg19	4	178882055	178882055	+	RNA	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	166.0	11.0	126.0	0.0	.	.	.	.	Atlas-INDEL
SBF2	81846	hgsc.bcm.edu	hg19	11	9864304	9864304	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SBF2	NM_030962	exon25	c.3125delC	p.T1042fs	.	.	197.0	12.0	143.0	0.0	.	146	.	.	Atlas-INDEL
COL9A1	1297	hgsc.bcm.edu	hg19	6	70963135	70963135	+	Splice_Site	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL9A1	NM_001851	exon27	c.1720-2T>-	.	.	.	257.0	20.0	212.0	0.0	.	228	.	.	Atlas-INDEL
ABCB4	5244	hgsc.bcm.edu	hg19	7	87081038	87081038	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ABCB4	NM_018850	exon7	c.610delG	p.A204fs	.	.	182.0	13.0	137.0	0.0	.	177	.	.	Atlas-INDEL
PNPLA4	8228	hgsc.bcm.edu	hg19	X	7894068	7894068	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PNPLA4	NM_004650	exon2	c.94delC	p.L32fs	.	.	154.0	10.0	159.0	0.0	.	24	.	.	Atlas-INDEL
PLEKHA8P1	51054	hgsc.bcm.edu	hg19	12	45567655	45567655	+	RNA	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	PLEKHA8P1,NS,carcinoma,0,1	PLEKHA8P1	.	.	.	.	.	.	246.0	15.0	205.0	0.0	.	38	.	.	Atlas-INDEL
ADCY1	107	hgsc.bcm.edu	hg19	7	45743294	45743294	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADCY1	NM_021116	exon16	c.2666delT	p.M889fs	.	.	249.0	15.0	215.0	0.0	.	187	.	.	Atlas-INDEL
RYR2	6262	hgsc.bcm.edu	hg19	1	237693788	237693788	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RYR2	NM_001035	exon25	c.2883delG	p.V961fs	.	.	131.0	10.0	70.0	0.0	.	1273	.	.	Atlas-INDEL
NOP14	8602	hgsc.bcm.edu	hg19	4	2950011	2950011	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOP14	NM_003703	exon9	c.1408delT	p.L470X	.	.	158.0	10.0	134.0	0.0	.	69	.	.	Atlas-INDEL
AKAP6	9472	hgsc.bcm.edu	hg19	14	33290855	33290855	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AKAP6	NM_004274	exon13	c.3835delG	p.A1279fs	.	.	156.0	11.0	121.0	0.0	.	308	.	.	Atlas-INDEL
HEATR4	399671	hgsc.bcm.edu	hg19	14	73945358	73945358	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HEATR4	NM_203309	exon17	c.3035delC	p.S1012fs	.	.	129.0	10.0	121.0	0.0	.	126	.	.	Atlas-INDEL
EPB41L3	23136	hgsc.bcm.edu	hg19	18	5428316	5428316	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EPB41L3	NM_012307	exon9	c.1062delA	p.G354fs	.	.	160.0	10.0	123.0	0.0	.	222	.	.	Atlas-INDEL
ATG5	9474	hgsc.bcm.edu	hg19	6	106727570	106727570	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATG5	NM_004849	exon5	c.445delG	p.D149fs	.	.	161.0	10.0	178.0	0.0	.	23	.	.	Atlas-INDEL
PRODH	5625	hgsc.bcm.edu	hg19	22	18905911	18905911	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRODH	NM_016335	exon12	c.1346delA	p.Q449fs	.	.	224.0	14.0	169.0	0.0	.	42	.	.	Atlas-INDEL
OTUD7B	56957	hgsc.bcm.edu	hg19	1	149922079	149922079	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OTUD7B	NM_020205	exon8	c.892delC	p.H298fs	.	.	179.0	12.0	85.0	0.0	.	76	.	.	Atlas-INDEL
USP9X	8239	hgsc.bcm.edu	hg19	X	41069811	41069811	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	USP9X	NM_001039591	exon33	c.5064delA	p.E1688fs	.	.	160.0	12.0	113.0	0.0	.	385	.	.	Atlas-INDEL
PPWD1	23398	hgsc.bcm.edu	hg19	5	64859205	64859205	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	PPWD1	NM_015342	exon1	c.67delG	p.E23fs	.	.	154.0	10.0	108.0	0.0	.	47	.	.	Atlas-INDEL
LEPREL4	10609	hgsc.bcm.edu	hg19	17	39959614	39959614	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LEPREL4	NM_006455	exon7	c.1217delA	p.E406fs	.	.	219.0	14.0	252.0	0.0	.	20	.	.	Atlas-INDEL
C1orf27	54953	hgsc.bcm.edu	hg19	1	186367553	186367553	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C1orf27	NM_017847	exon10	c.888delC	p.P296fs	.	.	160.0	14.0	99.0	0.0	.	41	.	.	Atlas-INDEL
SLC35C2	51006	hgsc.bcm.edu	hg19	20	44979150	44979150	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC35C2	NM_173179	exon10	c.982delA	p.K328fs	.	.	180.0	11.0	125.0	0.0	.	35	.	.	Atlas-INDEL
POU1F1	5449	hgsc.bcm.edu	hg19	3	87309133	87309133	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	POU1F1	NM_001122757	exon6	c.866delG	p.C289fs	.	.	231.0	14.0	194.0	0.0	.	70	.	.	Atlas-INDEL
WDR41	55255	hgsc.bcm.edu	hg19	5	76729042	76729042	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WDR41	NM_018268	exon13	c.1299delT	p.N433fs	.	.	162.0	10.0	153.0	0.0	.	29	.	.	Atlas-INDEL
NPAS4	266743	hgsc.bcm.edu	hg19	11	66193455	66193455	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NPAS4	NM_178864	exon8	c.2403delG	p.T801fs	.	.	181.0	12.0	129.0	0.0	.	133	.	.	Atlas-INDEL
KIF9	64147	hgsc.bcm.edu	hg19	3	47282419	47282419	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIF9	NM_182902	exon17	c.1797delC	p.N599fs	.	.	146.0	10.0	122.0	0.0	.	59	.	.	Atlas-INDEL
LTK	4058	hgsc.bcm.edu	hg19	15	41796336	41796336	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LTK	NM_002344	exon20	c.2454delA	p.P818fs	.	.	157.0	11.0	170.0	0.0	.	117	.	.	Atlas-INDEL
PLEC	5339	hgsc.bcm.edu	hg19	8	144991218	144991218	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PLEC	NM_201380	exon32	c.13183delA	p.I4395fs	.	.	248.0	15.0	99.0	0.0	.	1144	.	.	Atlas-INDEL
RAD18	56852	hgsc.bcm.edu	hg19	3	8977726	8977726	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RAD18	NM_020165	exon7	c.719delG	p.R240fs	.	.	175.0	11.0	131.0	0.0	.	52	.	.	Atlas-INDEL
PLIN1	5346	hgsc.bcm.edu	hg19	15	90210976	90210976	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PLIN1	NM_001145311	exon7	c.821delG	p.R274fs	.	.	150.0	11.0	97.0	0.0	.	36	.	.	Atlas-INDEL
SOGA2	23255	hgsc.bcm.edu	hg19	18	8825894	8825894	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_015210	exon15	c.4385delA	p.K1462fs	.	.	155.0	10.0	125.0	0.0	.	.	.	.	Atlas-INDEL
NBEAL1	65065	hgsc.bcm.edu	hg19	2	203974873	203974873	+	Splice_Site	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NBEAL1	NM_001114132	exon14	c.1863-1T>-	.	.	.	166.0	11.0	98.0	0.0	.	266	.	.	Atlas-INDEL
DHX32	55760	hgsc.bcm.edu	hg19	10	127542640	127542640	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DHX32	NM_018180	exon4	c.983delG	p.R328fs	.	.	156.0	10.0	148.0	0.0	.	67	.	.	Atlas-INDEL
MYH3	4621	hgsc.bcm.edu	hg19	17	10546255	10546255	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYH3	NM_002470	exon15	c.1470delC	p.F490fs	.	.	110.0	10.0	108.0	0.0	.	227	.	.	Atlas-INDEL
PACRG	135138	hgsc.bcm.edu	hg19	6	163483224	163483224	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PACRG	NM_001080379	exon3	c.333delG	p.L111fs	.	.	210.0	13.0	165.0	0.0	.	48	.	.	Atlas-INDEL
OR10G2	26534	hgsc.bcm.edu	hg19	14	22102864	22102864	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR10G2	NM_001005466	exon1	c.136delA	p.N46fs	.	.	231.0	14.0	243.0	0.0	.	35	.	.	Atlas-INDEL
MXRA7	439921	hgsc.bcm.edu	hg19	17	74681205	74681205	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MXRA7	NM_001008529	exon3	c.450delA	p.G150fs	.	.	152.0	10.0	158.0	0.0	.	11	.	.	Atlas-INDEL
GRB14	2888	hgsc.bcm.edu	hg19	2	165378510	165378510	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GRB14	NM_004490	exon6	c.797delC	p.S266fs	.	.	213.0	13.0	136.0	0.0	.	73	.	.	Atlas-INDEL
PRKAG2	51422	hgsc.bcm.edu	hg19	7	151372597	151372597	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,4	PRKAG2	NM_016203	exon4	c.594delG	p.P198fs	.	.	174.0	14.0	111.0	0.0	.	86	.	.	Atlas-INDEL
MICALCL	84953	hgsc.bcm.edu	hg19	11	12345559	12345559	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MICALCL	NM_032867	exon5	c.1576delG	p.E526fs	.	.	178.0	11.0	136.0	0.0	.	59	.	.	Atlas-INDEL
ATP13A1	57130	hgsc.bcm.edu	hg19	19	19774122	19774122	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATP13A1	NM_020410	exon1	c.355delC	p.H119fs	.	.	191.0	12.0	187.0	0.0	.	82	.	.	Atlas-INDEL
NAIP	4671	hgsc.bcm.edu	hg19	5	70307197	70307197	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NAIP	NM_004536	exon5	c.574delC	p.Q192fs	.	.	163.0	10.0	145.0	0.0	.	38	.	.	Atlas-INDEL
DYRK1A	1859	hgsc.bcm.edu	hg19	21	38852951	38852951	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DYRK1A	NM_001396	exon4	c.338delC	p.A113fs	.	.	108.0	10.0	101.0	0.0	.	85	.	.	Atlas-INDEL
MTFR2	113115	hgsc.bcm.edu	hg19	6	136562707	136562707	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_138419	exon5	c.390delT	p.N130fs	.	.	138.0	10.0	116.0	0.0	.	.	.	.	Atlas-INDEL
DSG3	1830	hgsc.bcm.edu	hg19	18	29037066	29037066	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DSG3	NM_001944	exon3	c.194delC	p.S65X	.	.	139.0	10.0	86.0	0.0	.	172	.	.	Atlas-INDEL
ZNF222	7673	hgsc.bcm.edu	hg19	19	44537092	44537092	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF222	NM_001129996	exon4	c.1384delG	p.E462fs	.	.	157.0	10.0	77.0	0.0	.	90	.	.	Atlas-INDEL
ZKSCAN3	80317	hgsc.bcm.edu	hg19	6	28333941	28333941	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZKSCAN3	NM_024493	exon6	c.1495delC	p.Q499fs	.	.	140.0	11.0	84.0	0.0	.	50	.	.	Atlas-INDEL
NEFH	4744	hgsc.bcm.edu	hg19	22	29885884	29885884	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NEFH	NM_021076	exon4	c.2254delT	p.S752fs	.	.	164.0	11.0	135.0	0.0	.	178	.	.	Atlas-INDEL
SCOC	60592	hgsc.bcm.edu	hg19	4	141302170	141302170	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SCOC	NM_001153484	exon4	c.391delG	p.E131fs	.	.	165.0	11.0	161.0	0.0	.	11	.	.	Atlas-INDEL
TTN	7273	hgsc.bcm.edu	hg19	2	179438689	179438689	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTN	NM_001267550	exon326	c.72171delA	p.P24057fs	.	.	192.0	12.0	147.0	0.0	.	18412	.	.	Atlas-INDEL
COL6A3	1293	hgsc.bcm.edu	hg19	2	238277223	238277223	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL6A3	NM_004369	exon10	c.4884delT	p.P1628fs	.	.	129.0	10.0	117.0	0.0	.	608	.	.	Atlas-INDEL
ATXN7L2	127002	hgsc.bcm.edu	hg19	1	110033680	110033680	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	ATXN7L2	NM_153340	exon10	c.1494delG	p.M498fs	.	.	162.0	11.0	164.0	0.0	.	60	.	.	Atlas-INDEL
AGO2	27161	hgsc.bcm.edu	hg19	8	141595382	141595382	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_012154	exon2	c.52delA	p.I18fs	.	.	181.0	12.0	98.0	0.0	.	.	.	.	Atlas-INDEL
AKAP7	9465	hgsc.bcm.edu	hg19	6	131540900	131540900	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AKAP7	NM_016377	exon7	c.801delG	p.K267fs	.	.	208.0	15.0	242.0	0.0	.	61	.	.	Atlas-INDEL
GK5	256356	hgsc.bcm.edu	hg19	3	141917719	141917719	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GK5	NM_001039547	exon5	c.469delA	p.T157fs	.	.	192.0	12.0	158.0	0.0	.	45	.	.	Atlas-INDEL
PRSS53	339105	hgsc.bcm.edu	hg19	16	31098992	31098992	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	PRSS53	NM_001039503	exon3	c.109delA	p.K37fs	.	.	128.0	11.0	114.0	0.0	.	29	.	.	Atlas-INDEL
MSL3	10943	hgsc.bcm.edu	hg19	X	11776451	11776451	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MSL3	NM_078628	exon1	c.68delA	p.D23fs	.	.	127.0	11.0	111.0	0.0	.	88	.	.	Atlas-INDEL
TRAP1	10131	hgsc.bcm.edu	hg19	16	3708188	3708188	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TRAP1	NM_016292	exon18	c.2058delT	p.P686fs	.	.	141.0	10.0	112.0	0.0	.	53	.	.	Atlas-INDEL
SPATA31D4	389761	hgsc.bcm.edu	hg19	9	84545071	84545071	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001145197	exon3	c.288delG	p.L96fs	.	.	182.0	12.0	158.0	0.0	.	.	.	.	Atlas-INDEL
GPR126	57211	hgsc.bcm.edu	hg19	6	142741019	142741019	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR126	NM_198569	exon22	c.3096delG	p.M1032fs	.	.	221.0	15.0	215.0	0.0	.	192	.	.	Atlas-INDEL
PCDHGA1	56114	hgsc.bcm.edu	hg19	5	140711785	140711785	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCDHGA1	NM_018912	exon1	c.1533delT	p.T511fs	.	.	149.0	11.0	111.0	0.0	.	397	.	.	Atlas-INDEL
ZCWPW1	55063	hgsc.bcm.edu	hg19	7	100013617	100013617	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZCWPW1	NM_001258008	exon8	c.736delG	p.G246fs	.	.	207.0	14.0	153.0	0.0	.	41	.	.	Atlas-INDEL
FER1L6	654463	hgsc.bcm.edu	hg19	8	125115501	125115501	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FER1L6	NM_001039112	exon39	c.5239delC	p.Q1747fs	.	.	188.0	12.0	94.0	0.0	.	268	.	.	Atlas-INDEL
ABCF1	23	hgsc.bcm.edu	hg19	6	30553664	30553664	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ABCF1	NM_001025091	exon17	c.1608delC	p.F536fs	.	.	123.0	10.0	57.0	0.0	.	61	.	.	Atlas-INDEL
ANKS1B	56899	hgsc.bcm.edu	hg19	12	99446958	99446958	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANKS1B	NM_152788	exon17	c.2756delT	p.I919fs	.	.	200.0	12.0	187.0	0.0	.	180	.	.	Atlas-INDEL
CDH9	1007	hgsc.bcm.edu	hg19	5	26988315	26988315	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDH9	NM_016279	exon2	c.127delG	p.D43fs	.	.	205.0	14.0	207.0	0.0	.	305	.	.	Atlas-INDEL
GTSE1	51512	hgsc.bcm.edu	hg19	22	46704068	46704068	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GTSE1	NM_016426	exon3	c.100delG	p.E34fs	.	.	174.0	11.0	127.0	0.0	.	100	.	.	Atlas-INDEL
PIK3C2A	5286	hgsc.bcm.edu	hg19	11	17150951	17150951	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PIK3C2A	NM_002645	exon12	c.2296delG	p.G766fs	.	.	167.0	13.0	126.0	0.0	.	148	.	.	Atlas-INDEL
NFIX	4784	hgsc.bcm.edu	hg19	19	13184726	13184726	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NFIX	NM_001271043	exon5	c.727delG	p.V243fs	.	.	152.0	10.0	131.0	0.0	.	61	.	.	Atlas-INDEL
C1orf173	127254	hgsc.bcm.edu	hg19	1	75112405	75112405	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C1orf173	NM_001002912	exon3	c.190delT	p.Y64fs	.	.	208.0	14.0	166.0	0.0	.	380	.	.	Atlas-INDEL
DOCK5	80005	hgsc.bcm.edu	hg19	8	25240190	25240190	+	Splice_Site	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DOCK5	NM_024940	exon40	c.4027-1A>-	.	.	.	78.0	10.0	74.0	0.0	.	167	.	.	Atlas-INDEL
WDR70	55100	hgsc.bcm.edu	hg19	5	37703139	37703139	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WDR70	NM_018034	exon13	c.1365delC	p.F455fs	.	.	194.0	14.0	163.0	0.0	.	76	.	.	Atlas-INDEL
USP19	10869	hgsc.bcm.edu	hg19	3	49153294	49153294	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	USP19	NM_001199161	exon11	c.1556delT	p.L519fs	.	.	205.0	13.0	171.0	0.0	.	158	.	.	Atlas-INDEL
ASPM	259266	hgsc.bcm.edu	hg19	1	197115430	197115430	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ASPM	NM_001206846	exon1	c.139delT	p.S47fs	.	.	104.0	10.0	57.0	0.0	.	444	.	.	Atlas-INDEL
PEAK1	0	hgsc.bcm.edu	hg19	15	77472174	77472174	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_024776	exon5	c.2096delG	p.R699fs	.	.	144.0	10.0	126.0	0.0	.	.	.	.	Atlas-INDEL
UBXN7	26043	hgsc.bcm.edu	hg19	3	196089423	196089423	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UBXN7	NM_015562	exon9	c.971delC	p.S324fs	.	.	163.0	10.0	152.0	0.0	.	43	.	.	Atlas-INDEL
GPR113	165082	hgsc.bcm.edu	hg19	2	26540962	26540962	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR113	NM_001145168	exon2	c.209delT	p.L70fs	.	.	161.0	13.0	107.0	0.0	.	134	.	.	Atlas-INDEL
MIR133B	442890	hgsc.bcm.edu	hg19	6	52013737	52013737	+	RNA	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	92.0	10.0	68.0	0.0	.	.	.	.	Atlas-INDEL
PSMD2	5708	hgsc.bcm.edu	hg19	3	184025287	184025287	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PSMD2	NM_002808	exon17	c.2176delA	p.I726fs	.	.	159.0	11.0	120.0	0.0	.	56	.	.	Atlas-INDEL
NUAK2	81788	hgsc.bcm.edu	hg19	1	205275421	205275421	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NUAK2	NM_030952	exon5	c.586delC	p.L196fs	.	.	167.0	11.0	94.0	0.0	.	107	.	.	Atlas-INDEL
ASIC4	55515	hgsc.bcm.edu	hg19	2	220402417	220402417	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_182847	exon8	c.1788delT	p.T596fs	.	.	159.0	10.0	125.0	0.0	.	.	.	.	Atlas-INDEL
RBM27	54439	hgsc.bcm.edu	hg19	5	145608566	145608566	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RBM27	NM_018989	exon4	c.360delT	p.S120fs	.	.	164.0	14.0	171.0	0.0	.	119	.	.	Atlas-INDEL
PLXNA1	5361	hgsc.bcm.edu	hg19	3	126710277	126710277	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PLXNA1	NM_032242	exon2	c.1244delT	p.L415fs	.	.	215.0	14.0	196.0	0.0	.	185	.	.	Atlas-INDEL
KLHDC8A	55220	hgsc.bcm.edu	hg19	1	205308534	205308534	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLHDC8A	NM_001271864	exon5	c.546delA	p.G182fs	.	.	161.0	10.0	67.0	0.0	.	31	.	.	Atlas-INDEL
GH2	2689	hgsc.bcm.edu	hg19	17	61958073	61958073	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GH2	NM_022557	exon4	c.516delA	p.G172fs	.	.	168.0	11.0	124.0	0.0	.	73	.	.	Atlas-INDEL
AP4E1	23431	hgsc.bcm.edu	hg19	15	51289642	51289642	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AP4E1	NM_007347	exon18	c.2465delC	p.S822X	.	.	163.0	11.0	107.0	0.0	.	78	.	.	Atlas-INDEL
CDH16	1014	hgsc.bcm.edu	hg19	16	66947073	66947073	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDH16	NM_004062	exon9	c.1016delG	p.R339fs	.	.	127.0	10.0	120.0	0.0	.	91	.	.	Atlas-INDEL
DLC1	10395	hgsc.bcm.edu	hg19	8	13356655	13356655	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DLC1	NM_182643	exon2	c.927delG	p.K309fs	.	.	162.0	10.0	188.0	0.0	.	411	.	.	Atlas-INDEL
CHD2	1106	hgsc.bcm.edu	hg19	15	93540530	93540530	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHD2	NM_001271	exon30	c.3781delT	p.W1261fs	.	.	170.0	12.0	142.0	0.0	.	280	.	.	Atlas-INDEL
FAM160A1	729830	hgsc.bcm.edu	hg19	4	152571011	152571011	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM160A1	NM_001109977	exon11	c.1817delG	p.G606fs	.	.	113.0	12.0	141.0	0.0	.	60	.	.	Atlas-INDEL
COL7A1	1294	hgsc.bcm.edu	hg19	3	48610137	48610137	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL7A1	NM_000094	exon87	c.6868delG	p.G2290fs	.	.	192.0	12.0	136.0	0.0	.	320	.	.	Atlas-INDEL
HGC6.3	0	hgsc.bcm.edu	hg19	6	168377111	168377111	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001129895	exon1	c.223delA	p.T75fs	.	.	165.0	10.0	108.0	0.0	.	.	.	.	Atlas-INDEL
CALHM1	255022	hgsc.bcm.edu	hg19	10	105215220	105215220	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CALHM1	NM_001001412	exon2	c.841delG	p.D281fs	.	.	172.0	11.0	185.0	0.0	.	33	.	.	Atlas-INDEL
SDS	10993	hgsc.bcm.edu	hg19	12	113835064	113835064	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SDS	NM_006843	exon6	c.560delA	p.D187fs	.	.	223.0	14.0	231.0	0.0	.	35	.	.	Atlas-INDEL
ZNF350	59348	hgsc.bcm.edu	hg19	19	52468815	52468815	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF350	NM_021632	exon5	c.892delG	p.G298fs	.	.	152.0	10.0	87.0	0.0	.	48	.	.	Atlas-INDEL
L3MBTL1	26013	hgsc.bcm.edu	hg19	20	42143323	42143323	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	L3MBTL1	NM_032107	exon4	c.342delG	p.Q114fs	.	.	160.0	10.0	104.0	0.0	.	105	.	.	Atlas-INDEL
ARHGAP10	79658	hgsc.bcm.edu	hg19	4	148744064	148744064	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARHGAP10	NM_024605	exon3	c.267delA	p.E89fs	.	.	157.0	10.0	124.0	0.0	.	92	.	.	Atlas-INDEL
TTC39C	125488	hgsc.bcm.edu	hg19	18	21698147	21698147	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTC39C	NM_001135993	exon8	c.1136delT	p.L379fs	.	.	129.0	11.0	115.0	0.0	.	83	.	.	Atlas-INDEL
GCC2	9648	hgsc.bcm.edu	hg19	2	109088158	109088158	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GCC2	NM_181453	exon6	c.2372delC	p.A791fs	.	.	347.0	21.0	274.0	0.0	.	129	.	.	Atlas-Indel,Pindel
NOB1	28987	hgsc.bcm.edu	hg19	16	69782138	69782138	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOB1	NM_014062	exon7	c.822delC	p.F274fs	.	.	164.0	10.0	136.0	0.0	.	24	.	.	Atlas-INDEL
C11orf84	144097	hgsc.bcm.edu	hg19	11	63586276	63586276	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C11orf84	NM_138471	exon5	c.735delG	p.E245fs	.	.	117.0	10.0	97.0	0.0	.	33	.	.	Atlas-INDEL
UIMC1	51720	hgsc.bcm.edu	hg19	5	176396191	176396191	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UIMC1	NM_016290	exon6	c.566delC	p.T189fs	.	.	238.0	16.0	171.0	0.0	.	55	.	.	Atlas-INDEL
ARNT	405	hgsc.bcm.edu	hg19	1	150808762	150808762	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARNT	NM_001668	exon7	c.695delT	p.L232fs	.	.	194.0	12.0	75.0	0.0	.	68	.	.	Atlas-INDEL
SRP72	6731	hgsc.bcm.edu	hg19	4	57333820	57333820	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	SRP72	NM_001267722	exon1	c.18delC	p.S6fs	.	.	134.0	10.0	135.0	0.0	.	59	.	.	Atlas-INDEL
ABL2	27	hgsc.bcm.edu	hg19	1	179078242	179078242	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ABL2	NM_007314	exon12	c.2161delA	p.S721fs	.	.	148.0	10.0	80.0	0.0	.	307	.	.	Atlas-INDEL
TMC4	147798	hgsc.bcm.edu	hg19	19	54672280	54672280	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMC4	NM_001145303	exon4	c.588delA	p.P196fs	.	.	195.0	13.0	127.0	0.0	.	89	.	.	Atlas-INDEL
FRMD7	90167	hgsc.bcm.edu	hg19	X	131211907	131211907	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FRMD7	NM_194277	exon12	c.2139delA	p.L713fs	.	.	233.0	14.0	181.0	0.0	.	69	.	.	Atlas-INDEL
SLC47A2	146802	hgsc.bcm.edu	hg19	17	19617255	19617255	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC47A2	NM_152908	exon4	c.327delC	p.G109fs	.	.	131.0	11.0	133.0	0.0	.	61	.	.	Atlas-INDEL
DIP2A	23181	hgsc.bcm.edu	hg19	21	47977529	47977529	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DIP2A	NM_015151	exon31	c.3660delG	p.V1220fs	.	.	125.0	11.0	124.0	0.0	.	332	.	.	Atlas-INDEL
ALDH4A1	8659	hgsc.bcm.edu	hg19	1	19213000	19213000	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ALDH4A1	NM_003748	exon4	c.256delA	p.N86fs	.	.	142.0	13.0	135.0	0.0	.	72	.	.	Atlas-INDEL
MAP3K8	1326	hgsc.bcm.edu	hg19	10	30740592	30740592	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAP3K8	NM_001244134	exon5	c.791delC	p.T264fs	.	.	120.0	11.0	94.0	0.0	.	46	.	.	Atlas-INDEL
NUDT6	11162	hgsc.bcm.edu	hg19	4	123833749	123833749	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NUDT6	NM_007083	exon3	c.473delT	p.I158fs	.	.	182.0	11.0	123.0	0.0	.	50	.	.	Atlas-INDEL
DHX30	22907	hgsc.bcm.edu	hg19	3	47884619	47884619	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DHX30	NM_138615	exon9	c.812delT	p.V271fs	.	.	177.0	12.0	148.0	0.0	.	101	.	.	Atlas-INDEL
C1orf228	339541	hgsc.bcm.edu	hg19	1	45155414	45155414	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C1orf228	NM_001145636	exon2	c.44delG	p.S15fs	.	.	177.0	15.0	128.0	0.0	.	15	.	.	Atlas-INDEL
WDR11	55717	hgsc.bcm.edu	hg19	10	122625230	122625230	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WDR11	NM_018117	exon7	c.967delA	p.I323fs	.	.	148.0	13.0	108.0	0.0	.	95	.	.	Atlas-INDEL
PLK1	5347	hgsc.bcm.edu	hg19	16	23695373	23695373	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PLK1	NM_005030	exon5	c.998delA	p.D333fs	.	.	153.0	10.0	115.0	0.0	.	67	.	.	Atlas-INDEL
CABP2	51475	hgsc.bcm.edu	hg19	11	67290137	67290137	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CABP2	NM_016366	exon2	c.94delA	p.S32fs	.	.	139.0	10.0	39.0	0.0	.	25	.	.	Atlas-INDEL
MAP4K5	11183	hgsc.bcm.edu	hg19	14	50933308	50933308	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAP4K5	NM_006575	exon11	c.731delC	p.T244fs	.	.	159.0	10.0	112.0	0.0	.	48	.	.	Atlas-INDEL
SUCLA2	8803	hgsc.bcm.edu	hg19	13	48562793	48562793	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SUCLA2	NM_003850	exon4	c.418delT	p.L140fs	.	.	160.0	10.0	118.0	0.0	.	40	.	.	Atlas-INDEL
SMTNL1	219537	hgsc.bcm.edu	hg19	11	57310817	57310817	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SMTNL1	NM_001105565	exon1	c.701delC	p.A234fs	.	.	151.0	10.0	129.0	0.0	.	68	.	.	Atlas-INDEL
CDK5RAP2	55755	hgsc.bcm.edu	hg19	9	123152026	123152026	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDK5RAP2	NM_018249	exon37	c.5619delC	p.N1873fs	.	.	157.0	11.0	156.0	0.0	.	157	.	.	Atlas-INDEL
KTN1	3895	hgsc.bcm.edu	hg19	14	56114751	56114751	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KTN1	NM_004986	exon20	c.2215delG	p.E739fs	.	.	160.0	10.0	176.0	0.0	.	147	.	.	Atlas-INDEL
CHMP6	79643	hgsc.bcm.edu	hg19	17	78969500	78969500	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHMP6	NM_024591	exon4	c.289delG	p.E97fs	.	.	198.0	14.0	162.0	0.0	.	16	.	.	Atlas-INDEL
FAM194B	220081	hgsc.bcm.edu	hg19	13	46154112	46154112	+	Splice_Site	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM194B	NM_182542	exon8	c.920-2T>-	.	.	.	183.0	11.0	108.0	0.0	.	42	.	.	Atlas-INDEL
SIGLEC6	946	hgsc.bcm.edu	hg19	19	52034030	52034030	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SIGLEC6	NM_198845	exon3	c.612delA	p.P204fs	.	.	159.0	14.0	126.0	0.0	.	142	.	.	Atlas-INDEL
NOL6	65083	hgsc.bcm.edu	hg19	9	33464082	33464082	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOL6	NM_022917	exon22	c.2858delA	p.Q953fs	.	.	167.0	11.0	137.0	0.0	.	85	.	.	Atlas-INDEL
NR2E1	7101	hgsc.bcm.edu	hg19	6	108499301	108499301	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NR2E1	NM_003269	exon5	c.497delA	p.Y166fs	.	.	157.0	10.0	122.0	0.0	.	57	.	.	Atlas-INDEL
RIC8A	60626	hgsc.bcm.edu	hg19	11	211289	211289	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RIC8A	NM_021932	exon5	c.908delT	p.M303fs	.	.	158.0	10.0	150.0	0.0	.	45	.	.	Atlas-INDEL
SLCO6A1	133482	hgsc.bcm.edu	hg19	5	101774421	101774421	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLCO6A1	NM_173488	exon7	c.1177delG	p.A393fs	.	.	143.0	11.0	123.0	0.0	.	153	.	.	Atlas-INDEL
PIK3CB	5291	hgsc.bcm.edu	hg19	3	138461437	138461437	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PIK3CB	NM_006219	exon3	c.585delA	p.G195fs	.	.	146.0	10.0	134.0	0.0	.	103	.	.	Atlas-INDEL
RAG2	5897	hgsc.bcm.edu	hg19	11	36614735	36614735	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RAG2	NM_001243785	exon3	c.985delC	p.L329fs	.	.	310.0	20.0	187.0	0.0	.	92	.	.	Atlas-INDEL
SLIT3	6586	hgsc.bcm.edu	hg19	5	168100194	168100194	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLIT3	NM_001271946	exon33	c.3851delT	p.L1284fs	.	.	151.0	11.0	162.0	0.0	.	224	.	.	Atlas-INDEL
TMEM104	54868	hgsc.bcm.edu	hg19	17	72791152	72791152	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMEM104	NM_017728	exon7	c.428delT	p.V143fs	.	.	131.0	10.0	147.0	0.0	.	49	.	.	Atlas-INDEL
HSP90AB1	3326	hgsc.bcm.edu	hg19	6	44218079	44218079	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HSP90AB1	NM_007355	exon6	c.699delG	p.E233fs	.	.	165.0	10.0	102.0	0.0	.	83	.	.	Atlas-INDEL
LTK	4058	hgsc.bcm.edu	hg19	15	41797198	41797198	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LTK	NM_002344	exon16	c.1991delA	p.D664fs	.	.	140.0	10.0	127.0	0.0	.	117	.	.	Atlas-INDEL
ATG2B	55102	hgsc.bcm.edu	hg19	14	96807965	96807965	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATG2B	NM_018036	exon6	c.819delT	p.N273fs	.	.	103.0	10.0	95.0	0.0	.	169	.	.	Atlas-INDEL
C5orf51	285636	hgsc.bcm.edu	hg19	5	41909898	41909898	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C5orf51	NM_175921	exon3	c.257delA	p.D86fs	.	.	172.0	13.0	129.0	0.0	.	28	.	.	Atlas-INDEL
DACH1	1602	hgsc.bcm.edu	hg19	13	72440861	72440861	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DACH1	NM_080759	exon1	c.48delT	p.P16fs	.	.	179.0	11.0	182.0	0.0	.	123	.	.	Atlas-INDEL
MYH3	4621	hgsc.bcm.edu	hg19	17	10535885	10535885	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYH3	NM_002470	exon34	c.4865delA	p.D1622fs	.	.	135.0	10.0	123.0	0.0	.	227	.	.	Atlas-INDEL
COL11A2	1302	hgsc.bcm.edu	hg19	6	33139837	33139837	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL11A2	NM_080680	exon41	c.3033delT	p.P1011fs	.	.	199.0	12.0	96.0	0.0	.	124	.	.	Atlas-INDEL
CHPF2	54480	hgsc.bcm.edu	hg19	7	150932436	150932436	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHPF2	NM_019015	exon2	c.565delG	p.A189fs	.	.	107.0	10.0	94.0	0.0	.	52	.	.	Atlas-INDEL
MTOR	2475	hgsc.bcm.edu	hg19	1	11292498	11292498	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MTOR	NM_004958	exon16	c.2510delG	p.R837fs	.	.	138.0	11.0	138.0	0.0	.	327	.	.	Atlas-INDEL
CP	1356	hgsc.bcm.edu	hg19	3	148927955	148927955	+	Frame_Shift_Del	DEL	T	T	-	rs386134143		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CP	NM_000096	exon3	c.607delG	p.D203fs	.	.	139.0	10.0	112.0	0.0	.	112	.	.	Atlas-INDEL
TBCCD1	55171	hgsc.bcm.edu	hg19	3	186272330	186272330	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TBCCD1	NM_001134415	exon6	c.1258delC	p.H420fs	.	.	113.0	10.0	85.0	0.0	.	42	.	.	Atlas-INDEL
CSPG4	1464	hgsc.bcm.edu	hg19	15	75980311	75980311	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CSPG4	NM_001897	exon3	c.3096delT	p.G1032fs	.	.	130.0	10.0	114.0	0.0	.	175	.	.	Atlas-INDEL
TPM3	7170	hgsc.bcm.edu	hg19	1	154148611	154148611	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TPM3	NM_152263	exon3	c.358delG	p.A120fs	.	.	247.0	16.0	148.0	0.0	.	46	.	.	Atlas-INDEL
MAP2K6	5608	hgsc.bcm.edu	hg19	17	67537867	67537867	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAP2K6	NM_002758	exon12	c.977delC	p.S326fs	.	.	171.0	11.0	163.0	0.0	.	41	.	.	Atlas-INDEL
NYAP2	57624	hgsc.bcm.edu	hg19	2	226491650	226491650	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_020864	exon5	c.1635delG	p.L545fs	.	.	148.0	10.0	104.0	0.0	.	.	.	.	Atlas-INDEL
MEF2A	4205	hgsc.bcm.edu	hg19	15	100252908	100252908	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MEF2A	NM_005587	exon11	c.1431delA	p.R477fs	.	.	195.0	12.0	193.0	0.0	.	138	.	.	Atlas-INDEL
TUBA3E	112714	hgsc.bcm.edu	hg19	2	130951451	130951451	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TUBA3E	NM_207312	exon4	c.965delA	p.D322fs	.	.	231.0	14.0	169.0	0.0	.	73	.	.	Atlas-INDEL
ABCC5	10057	hgsc.bcm.edu	hg19	3	183699624	183699624	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ABCC5	NM_005688	exon8	c.1039delT	p.C347fs	.	.	165.0	12.0	106.0	0.0	.	142	.	.	Atlas-INDEL
CNOT11	55571	hgsc.bcm.edu	hg19	2	101885729	101885729	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_017546	exon7	c.1386delC	p.N462fs	.	.	161.0	10.0	130.0	0.0	.	.	.	.	Atlas-INDEL
IDH1	3417	hgsc.bcm.edu	hg19	2	209110110	209110110	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IDH1	NM_005896	exon5	c.454delG	p.V152X	.	.	208.0	13.0	147.0	0.0	.	6310	.	.	Atlas-INDEL
C2orf71	388939	hgsc.bcm.edu	hg19	2	29294038	29294038	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C2orf71	NM_001029883	exon1	c.3091delA	p.S1031fs	.	.	190.0	12.0	128.0	0.0	.	146	.	.	Atlas-INDEL
SEC14L4	284904	hgsc.bcm.edu	hg19	22	30890192	30890192	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SEC14L4	NM_001161368	exon7	c.526delA	p.S176fs	.	.	199.0	12.0	145.0	0.0	.	43	.	.	Atlas-INDEL
SYTL2	54843	hgsc.bcm.edu	hg19	11	85435856	85435856	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SYTL2	NM_206927	exon1	c.1645delT	p.Y549fs	.	.	153.0	10.0	103.0	0.0	.	231	.	.	Atlas-INDEL
OGT	8473	hgsc.bcm.edu	hg19	X	70783055	70783055	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OGT	NM_181672	exon17	c.2223delC	p.L741fs	.	.	174.0	11.0	115.0	0.0	.	207	.	.	Atlas-INDEL
HMGXB3	22993	hgsc.bcm.edu	hg19	5	149386090	149386090	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HMGXB3	NM_014983	exon3	c.191delT	p.L64fs	.	.	123.0	11.0	101.0	0.0	.	31	.	.	Atlas-INDEL
GK	2710	hgsc.bcm.edu	hg19	X	30719015	30719015	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GK	NM_203391	exon11	c.843delC	p.A281fs	.	.	142.0	10.0	98.0	0.0	.	95	.	.	Atlas-INDEL
OBSCN	84033	hgsc.bcm.edu	hg19	1	228564975	228564975	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OBSCN	NM_001271223	exon112	c.26132delT	p.L8711fs	.	.	115.0	10.0	55.0	0.0	.	2142	.	.	Atlas-INDEL
NPAT	4863	hgsc.bcm.edu	hg19	11	108043363	108043363	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NPAT	NM_002519	exon13	c.2349delT	p.N783fs	.	.	191.0	13.0	131.0	0.0	.	124	.	.	Atlas-INDEL
APAF1	317	hgsc.bcm.edu	hg19	12	99119233	99119233	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	APAF1	NM_181861	exon25	c.3370delA	p.R1124fs	.	.	167.0	11.0	129.0	0.0	.	111	.	.	Atlas-INDEL
ZAK	0	hgsc.bcm.edu	hg19	2	174130888	174130888	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZAK	NM_016653	exon20	c.1812delC	p.H604fs	.	.	233.0	14.0	202.0	0.0	.	62	.	.	Atlas-INDEL
COL11A2	1302	hgsc.bcm.edu	hg19	6	33132109	33132109	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL11A2	NM_080680	exon65	c.5006delC	p.A1669fs	.	.	177.0	13.0	127.0	0.0	.	124	.	.	Atlas-INDEL
TNFSF8	944	hgsc.bcm.edu	hg19	9	117666406	117666406	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNFSF8	NM_001244	exon4	c.511delC	p.Q171fs	.	.	255.0	16.0	255.0	0.0	.	34	.	.	Atlas-INDEL
MAPT	4137	hgsc.bcm.edu	hg19	17	44060593	44060593	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAPT	NM_001123066	exon6	c.422delG	p.G141fs	.	.	163.0	10.0	169.0	0.0	.	135	.	.	Atlas-INDEL
RCCD1	91433	hgsc.bcm.edu	hg19	15	91500927	91500927	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RCCD1	NM_001017919	exon4	c.650delC	p.A217fs	.	.	174.0	16.0	136.0	0.0	.	9	.	.	Atlas-INDEL
AKAP7	9465	hgsc.bcm.edu	hg19	6	131481221	131481221	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AKAP7	NM_016377	exon3	c.173delA	p.N58fs	.	.	163.0	10.0	145.0	0.0	.	61	.	.	Atlas-INDEL
DENND4A	10260	hgsc.bcm.edu	hg19	15	65983623	65983623	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DENND4A	NM_001144823	exon23	c.3307delT	p.L1103fs	.	.	118.0	10.0	119.0	0.0	.	217	.	.	Atlas-INDEL
SLC35A3	23443	hgsc.bcm.edu	hg19	1	100483342	100483342	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC35A3	NM_001271685	exon7	c.983delA	p.Y328fs	.	.	186.0	12.0	194.0	0.0	.	25	.	.	Atlas-INDEL
TSPO	706	hgsc.bcm.edu	hg19	22	43557161	43557161	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TSPO	NM_001256531	exon3	c.285delG	p.W95fs	.	.	195.0	15.0	173.0	0.0	.	6	.	.	Atlas-INDEL
FLOT1	10211	hgsc.bcm.edu	hg19	6	30698207	30698207	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FLOT1	NM_005803	exon11	c.1088delA	p.Q363fs	.	.	210.0	14.0	122.0	0.0	.	28	.	.	Atlas-INDEL
ANKMY1	51281	hgsc.bcm.edu	hg19	2	241465814	241465814	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANKMY1	NM_016552	exon5	c.736delA	p.K246fs	.	.	183.0	11.0	169.0	0.0	.	112	.	.	Atlas-INDEL
KLHDC7B	113730	hgsc.bcm.edu	hg19	22	50988068	50988068	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLHDC7B	NM_138433	exon1	c.1472delT	p.L491fs	.	.	105.0	10.0	78.0	0.0	.	39	.	.	Atlas-INDEL
PRB4	5545	hgsc.bcm.edu	hg19	12	11461606	11461606	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRB4	NM_001261399	exon3	c.312delA	p.P104fs	.	.	131.0	11.0	83.0	0.0	.	59	.	.	Atlas-INDEL
GBP7	388646	hgsc.bcm.edu	hg19	1	89613446	89613446	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	GBP7,NS,carcinoma,-1,1	GBP7	NM_207398	exon8	c.1170delG	p.K390fs	.	.	183.0	11.0	122.0	0.0	.	57	.	.	Atlas-INDEL
GMCL1	64395	hgsc.bcm.edu	hg19	2	70076825	70076825	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GMCL1	NM_178439	exon8	c.884delT	p.L295X	.	.	221.0	14.0	175.0	0.0	.	50	.	.	Atlas-INDEL
HFM1	164045	hgsc.bcm.edu	hg19	1	91846518	91846518	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HFM1	NM_001017975	exon7	c.825delC	p.F275fs	.	.	170.0	11.0	150.0	0.0	.	188	.	.	Atlas-INDEL
KLHL5	51088	hgsc.bcm.edu	hg19	4	39064232	39064232	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLHL5	NM_015990	exon1	c.97delC	p.L33fs	.	.	260.0	16.0	203.0	0.0	.	75	.	.	Atlas-INDEL
SRGAP1	57522	hgsc.bcm.edu	hg19	12	64536183	64536183	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SRGAP1	NM_020762	exon22	c.2988delG	p.V996fs	.	.	136.0	10.0	112.0	0.0	.	146	.	.	Atlas-INDEL
TRIM31	11074	hgsc.bcm.edu	hg19	6	30075888	30075888	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TRIM31	NM_007028	exon6	c.826delC	p.L276fs	.	.	264.0	16.0	139.0	0.0	.	40	.	.	Atlas-INDEL
EIF3M	10480	hgsc.bcm.edu	hg19	11	32610663	32610663	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EIF3M	NM_006360	exon4	c.419delT	p.I140fs	.	.	108.0	10.0	95.0	0.0	.	37	.	.	Atlas-INDEL
FANCI	55215	hgsc.bcm.edu	hg19	15	89837107	89837107	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FANCI	NM_001113378	exon23	c.2334delC	p.Y778X	.	.	180.0	11.0	102.0	0.0	.	129	.	.	Atlas-INDEL
FAM187B	148109	hgsc.bcm.edu	hg19	19	35715793	35715793	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	FAM187B,NS,carcinoma,0,1	FAM187B	NM_152481	exon2	c.1046delC	p.A349fs	.	.	189.0	12.0	145.0	0.0	.	28	.	.	Atlas-INDEL
ATG9A	79065	hgsc.bcm.edu	hg19	2	220088847	220088847	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATG9A	NM_001077198	exon8	c.1247delT	p.V416fs	.	.	171.0	11.0	138.0	0.0	.	50	.	.	Atlas-INDEL
NUP153	9972	hgsc.bcm.edu	hg19	6	17665533	17665533	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NUP153	NM_005124	exon9	c.1153delC	p.P385fs	.	.	163.0	10.0	108.0	0.0	.	116	.	.	Atlas-INDEL
AIM1	202	hgsc.bcm.edu	hg19	6	106973032	106973032	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AIM1	NM_001624	exon3	c.3045delT	p.N1015fs	.	.	199.0	12.0	168.0	0.0	.	161	.	.	Atlas-INDEL
IKZF5	64376	hgsc.bcm.edu	hg19	10	124753859	124753859	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IKZF5	NM_001271840	exon5	c.698delC	p.T233fs	.	.	246.0	17.0	208.0	0.0	.	26	.	.	Atlas-INDEL
BBS2	583	hgsc.bcm.edu	hg19	16	56534909	56534909	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BBS2	NM_031885	exon11	c.1255delG	p.A419fs	.	.	212.0	14.0	191.0	0.0	.	67	.	.	Atlas-INDEL
SETD2	29072	hgsc.bcm.edu	hg19	3	47143007	47143007	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SETD2	NM_014159	exon8	c.4957delA	p.T1653fs	.	.	160.0	10.0	126.0	0.0	.	721	.	.	Atlas-INDEL
SHANK3	85358	hgsc.bcm.edu	hg19	22	51160703	51160703	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SHANK3	NM_033517	exon21	c.4399delC	p.R1467fs	.	.	214.0	13.0	177.0	0.0	.	96	.	.	Atlas-INDEL
MAPK15	225689	hgsc.bcm.edu	hg19	8	144802914	144802914	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAPK15	NM_139021	exon9	c.820delT	p.S274fs	.	.	198.0	13.0	60.0	0.0	.	32	.	.	Atlas-INDEL
DSG4	147409	hgsc.bcm.edu	hg19	18	28986275	28986275	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DSG4	NM_001134453	exon12	c.1871delC	p.S624X	.	.	180.0	12.0	157.0	0.0	.	343	.	.	Atlas-INDEL
HNRPDL	9987	hgsc.bcm.edu	hg19	4	83348625	83348625	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HNRPDL	NM_031372	exon4	c.868delT	p.L290fs	.	.	125.0	11.0	135.0	0.0	.	35	.	.	Atlas-INDEL
MYO1H	283446	hgsc.bcm.edu	hg19	12	109879445	109879445	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYO1H	NM_001101421	exon25	c.2515delG	p.E839fs	.	.	204.0	14.0	171.0	0.0	.	98	.	.	Atlas-INDEL
GABRA4	2557	hgsc.bcm.edu	hg19	4	46979532	46979532	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GABRA4	NM_000809	exon4	c.390delT	p.P130fs	.	.	192.0	12.0	182.0	0.0	.	129	.	.	Atlas-INDEL
ZMAT1	84460	hgsc.bcm.edu	hg19	X	101138606	101138606	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZMAT1	NM_001011657	exon7	c.1794delG	p.K598fs	.	.	141.0	10.0	119.0	0.0	.	143	.	.	Atlas-INDEL
SLC36A4	120103	hgsc.bcm.edu	hg19	11	92901154	92901154	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC36A4	NM_152313	exon7	c.725delC	p.S242fs	.	.	185.0	12.0	114.0	0.0	.	61	.	.	Atlas-INDEL
HLA-DOA	3111	hgsc.bcm.edu	hg19	6	32974621	32974621	+	Splice_Site	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HLA-DOA	NM_002119	exon6	c.750-2T>-	.	.	.	152.0	10.0	99.0	0.0	.	22	.	.	Atlas-INDEL
ARHGEF1	9138	hgsc.bcm.edu	hg19	19	42407036	42407036	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARHGEF1	NM_199002	exon18	c.1770delC	p.I590fs	.	.	108.0	10.0	99.0	0.0	.	95	.	.	Atlas-INDEL
TAF2	6873	hgsc.bcm.edu	hg19	8	120774703	120774703	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TAF2	NM_003184	exon19	c.2511delG	p.L837fs	.	.	184.0	12.0	96.0	0.0	.	204	.	.	Atlas-INDEL
GPR155	151556	hgsc.bcm.edu	hg19	2	175326315	175326315	+	Splice_Site	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR155	NM_001267051	exon8	c.1385+2G>-	.	.	.	178.0	13.0	135.0	0.0	.	76	.	.	Atlas-INDEL
ZNF181	339318	hgsc.bcm.edu	hg19	19	35230499	35230499	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF181	NM_001029997	exon3	c.201delG	p.E67fs	.	.	169.0	12.0	131.0	0.0	.	65	.	.	Atlas-INDEL
NSD1	64324	hgsc.bcm.edu	hg19	5	176638499	176638499	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NSD1	NM_022455	exon5	c.3098delC	p.A1033fs	.	.	166.0	12.0	120.0	0.0	.	416	.	.	Atlas-INDEL
ATG2A	23130	hgsc.bcm.edu	hg19	11	64665805	64665805	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATG2A	NM_015104	exon33	c.4702delA	p.T1568fs	.	.	141.0	11.0	101.0	0.0	.	133	.	.	Atlas-INDEL
SRPR	6734	hgsc.bcm.edu	hg19	11	126136482	126136482	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SRPR	NM_003139	exon6	c.730delG	p.A244fs	.	.	230.0	14.0	193.0	0.0	.	60	.	.	Atlas-INDEL
SYNE1	23345	hgsc.bcm.edu	hg19	6	152553297	152553297	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SYNE1	NM_182961	exon113	c.20817delT	p.N6939fs	.	.	180.0	13.0	183.0	0.0	.	3227	.	.	Atlas-INDEL
STAP1	26228	hgsc.bcm.edu	hg19	4	68472044	68472044	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	STAP1	NM_012108	exon9	c.856delG	p.E286fs	.	.	165.0	11.0	176.0	0.0	.	46	.	.	Atlas-INDEL
LILRA2	11027	hgsc.bcm.edu	hg19	19	55098671	55098671	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LILRA2	NM_001130917	exon8	c.1309delT	p.S437fs	.	.	205.0	13.0	198.0	0.0	.	99	.	.	Atlas-INDEL
MICAL3	57553	hgsc.bcm.edu	hg19	22	18387542	18387542	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MICAL3	NM_015241	exon3	c.329delC	p.A110fs	.	.	164.0	12.0	156.0	0.0	.	53	.	.	Atlas-INDEL
CDKL2	8999	hgsc.bcm.edu	hg19	4	76551036	76551036	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDKL2	NM_003948	exon2	c.138delG	p.K46fs	.	.	127.0	11.0	103.0	0.0	.	58	.	.	Atlas-INDEL
RXRB	6257	hgsc.bcm.edu	hg19	6	33164342	33164342	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RXRB	NM_021976	exon5	c.863delA	p.D288fs	.	.	152.0	10.0	86.0	0.0	.	34	.	.	Atlas-INDEL
CSF1	1435	hgsc.bcm.edu	hg19	1	110466713	110466713	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CSF1	NM_000757	exon6	c.1469delG	p.S490fs	.	.	177.0	11.0	135.0	0.0	.	40	.	.	Atlas-INDEL
CS	1431	hgsc.bcm.edu	hg19	12	56676682	56676682	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CS	NM_004077	exon5	c.362delG	p.W121fs	.	.	134.0	10.0	103.0	0.0	.	44	.	.	Atlas-INDEL
LYPD3	27076	hgsc.bcm.edu	hg19	19	43968611	43968611	+	Splice_Site	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LYPD3	NM_014400	exon3	c.80-2C>-	.	.	.	183.0	11.0	104.0	0.0	.	24	.	.	Atlas-INDEL
KDM4C	23081	hgsc.bcm.edu	hg19	9	7169999	7169999	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KDM4C	NM_001146694	exon21	c.3102delT	p.S1034fs	.	.	134.0	11.0	100.0	0.0	.	186	.	.	Atlas-INDEL
MFN1	55669	hgsc.bcm.edu	hg19	3	179082955	179082955	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MFN1	NM_033540	exon7	c.694delA	p.I232fs	.	.	155.0	11.0	153.0	0.0	.	72	.	.	Atlas-INDEL
NEK5	341676	hgsc.bcm.edu	hg19	13	52650224	52650224	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NEK5	NM_199289	exon19	c.1704delT	p.N568fs	.	.	131.0	10.0	96.0	0.0	.	189	.	.	Atlas-INDEL
RALY	22913	hgsc.bcm.edu	hg19	20	32664985	32664985	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RALY	NM_016732	exon8	c.809delA	p.Q270fs	.	.	197.0	12.0	157.0	0.0	.	44	.	.	Atlas-INDEL
SORBS2	8470	hgsc.bcm.edu	hg19	4	186570678	186570678	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SORBS2	NM_001145673	exon10	c.1050delA	p.P350fs	.	.	192.0	12.0	230.0	0.0	.	300	.	.	Atlas-INDEL
FAM71B	153745	hgsc.bcm.edu	hg19	5	156592606	156592606	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM71B	NM_130899	exon1	c.575delA	p.D192fs	.	.	265.0	17.0	208.0	0.0	.	145	.	.	Atlas-INDEL
OR14J1	442191	hgsc.bcm.edu	hg19	6	29274914	29274914	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR14J1	NM_030946	exon1	c.447delT	p.A149fs	.	.	252.0	16.0	116.0	0.0	.	43	.	.	Atlas-INDEL
DNAH10	196385	hgsc.bcm.edu	hg19	12	124289391	124289391	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNAH10	NM_207437	exon17	c.2436delA	p.E812fs	.	.	159.0	10.0	148.0	0.0	.	888	.	.	Atlas-INDEL
RB1CC1	9821	hgsc.bcm.edu	hg19	8	53569774	53569774	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	RB1CC1	NM_001083617	exon15	c.2616delT	p.N872fs	.	.	159.0	10.0	54.0	0.0	.	163	.	.	Atlas-INDEL
CCDC14	64770	hgsc.bcm.edu	hg19	3	123675247	123675247	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CCDC14	NM_022757	exon3	c.259delA	p.N87fs	.	.	189.0	12.0	96.0	0.0	.	97	.	.	Atlas-INDEL
SPATA31A1	647060	hgsc.bcm.edu	hg19	9	39358166	39358166	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001085452	exon4	c.403delT	p.S135fs	.	.	157.0	10.0	135.0	0.0	.	.	.	.	Atlas-INDEL
HGD	3081	hgsc.bcm.edu	hg19	3	120352071	120352071	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HGD	NM_000187	exon13	c.1112delA	p.H371fs	.	.	182.0	15.0	119.0	0.0	.	65	.	.	Atlas-INDEL
STXBP5L	9515	hgsc.bcm.edu	hg19	3	121001118	121001118	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	STXBP5L	NM_014980	exon20	c.2115delC	p.N705fs	.	.	138.0	11.0	103.0	0.0	.	159	.	.	Atlas-INDEL
SHROOM1	134549	hgsc.bcm.edu	hg19	5	132159877	132159877	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SHROOM1	NM_133456	exon4	c.1477delA	p.T493fs	.	.	294.0	18.0	269.0	0.0	.	35	.	.	Atlas-INDEL
FANCI	55215	hgsc.bcm.edu	hg19	15	89803947	89803947	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FANCI	NM_001113378	exon4	c.160delT	p.S54fs	.	.	149.0	10.0	93.0	0.0	.	129	.	.	Atlas-INDEL
ZCCHC9	84240	hgsc.bcm.edu	hg19	5	80608454	80608454	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZCCHC9	NM_001131036	exon6	c.788delC	p.T263fs	.	.	165.0	10.0	122.0	0.0	.	26	.	.	Atlas-INDEL
KALRN	8997	hgsc.bcm.edu	hg19	3	124210257	124210257	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KALRN	NM_003947	exon31	c.4668delT	p.N1556fs	.	.	103.0	10.0	74.0	0.0	.	556	.	.	Atlas-INDEL
ADH1B	125	hgsc.bcm.edu	hg19	4	100231959	100231959	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADH1B	NM_000668	exon8	c.1067delT	p.I356fs	.	.	202.0	14.0	166.0	0.0	.	68	.	.	Atlas-INDEL
FPGT-TNNI3K	100526835	hgsc.bcm.edu	hg19	1	74930379	74930379	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001199327	exon24	c.2484delG	p.K828fs	.	.	144.0	10.0	127.0	0.0	.	.	.	.	Atlas-INDEL
CCDC60	160777	hgsc.bcm.edu	hg19	12	119968734	119968734	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CCDC60	NM_178499	exon13	c.1416delC	p.A472fs	.	.	162.0	10.0	148.0	0.0	.	84	.	.	Atlas-INDEL
OIT3	170392	hgsc.bcm.edu	hg19	10	74673122	74673122	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OIT3	NM_152635	exon6	c.846delT	p.V282fs	.	.	157.0	11.0	114.0	0.0	.	62	.	.	Atlas-INDEL
SLC17A9	63910	hgsc.bcm.edu	hg19	20	61588797	61588797	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC17A9	NM_022082	exon3	c.261delT	p.I87fs	.	.	153.0	10.0	113.0	0.0	.	54	.	.	Atlas-INDEL
HTT	3064	hgsc.bcm.edu	hg19	4	3129309	3129309	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HTT	NM_002111	exon12	c.1720delA	p.T574fs	.	.	253.0	17.0	225.0	0.0	.	221	.	.	Atlas-INDEL
IQGAP1	8826	hgsc.bcm.edu	hg19	15	91009653	91009653	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IQGAP1	NM_003870	exon17	c.2019delG	p.K673fs	.	.	144.0	11.0	95.0	0.0	.	140	.	.	Atlas-INDEL
SWT1	54823	hgsc.bcm.edu	hg19	1	185135718	185135718	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SWT1	NM_017673	exon3	c.98delG	p.R33fs	.	.	180.0	11.0	123.0	0.0	.	88	.	.	Atlas-INDEL
COL12A1	1303	hgsc.bcm.edu	hg19	6	75818818	75818818	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL12A1	NM_004370	exon52	c.8017delG	p.D2673fs	.	.	173.0	11.0	175.0	0.0	.	385	.	.	Atlas-INDEL
PLOD2	5352	hgsc.bcm.edu	hg19	3	145794581	145794581	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PLOD2	NM_182943	exon15	c.1666delG	p.E556fs	.	.	161.0	12.0	126.0	0.0	.	81	.	.	Atlas-INDEL
DNAH6	1768	hgsc.bcm.edu	hg19	2	84861633	84861633	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNAH6	NM_001370	exon30	c.4520delT	p.M1507fs	.	.	144.0	10.0	101.0	0.0	.	194	.	.	Atlas-INDEL
DMXL2	23312	hgsc.bcm.edu	hg19	15	51914662	51914662	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DMXL2	NM_001174117	exon1	c.82delT	p.F28fs	.	.	156.0	10.0	128.0	0.0	.	262	.	.	Atlas-INDEL
GHRHR	2692	hgsc.bcm.edu	hg19	7	31015405	31015405	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GHRHR	NM_000823	exon10	c.895delC	p.L299fs	.	.	183.0	12.0	129.0	0.0	.	55	.	.	Atlas-INDEL
KATNAL1	84056	hgsc.bcm.edu	hg19	13	30815176	30815176	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KATNAL1	NM_001014380	exon5	c.541delT	p.F181fs	.	.	146.0	10.0	70.0	0.0	.	53	.	.	Atlas-INDEL
DSCAM	1826	hgsc.bcm.edu	hg19	21	41452224	41452224	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DSCAM	NM_001271534	exon25	c.4276delA	p.S1426fs	.	.	179.0	11.0	180.0	0.0	.	347	.	.	Atlas-INDEL
DDX52	11056	hgsc.bcm.edu	hg19	17	36002258	36002258	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DDX52	NM_007010	exon2	c.168delA	p.P56fs	.	.	181.0	11.0	185.0	0.0	.	40	.	.	Atlas-INDEL
PC	5091	hgsc.bcm.edu	hg19	11	66638785	66638785	+	Splice_Site	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PC	NM_001040716	exon7	c.487+2G>-	.	.	.	154.0	10.0	107.0	0.0	.	116	.	.	Atlas-INDEL
RBM12B	389677	hgsc.bcm.edu	hg19	8	94746698	94746698	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RBM12B	NM_203390	exon3	c.1942delG	p.E648fs	.	.	159.0	10.0	75.0	0.0	.	78	.	.	Atlas-INDEL
ADAMTSL4	54507	hgsc.bcm.edu	hg19	1	150532255	150532255	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADAMTSL4	NM_019032	exon18	c.2961delA	p.Q987fs	.	.	165.0	10.0	72.0	0.0	.	101	.	.	Atlas-INDEL
ZBED1	9189	hgsc.bcm.edu	hg19	X	2408092	2408092	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZBED1	NM_001171135	exon2	c.670delA	p.N224fs	.	.	161.0	10.0	119.0	0.0	.	64	.	.	Atlas-INDEL
EP400	57634	hgsc.bcm.edu	hg19	12	132502833	132502833	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EP400	NM_015409	exon21	c.4188delG	p.K1396fs	.	.	159.0	11.0	148.0	0.0	.	370	.	.	Atlas-INDEL
CEBPZ	10153	hgsc.bcm.edu	hg19	2	37449611	37449611	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CEBPZ	NM_005760	exon4	c.1978delC	p.L660fs	.	.	188.0	12.0	150.0	0.0	.	68	.	.	Atlas-INDEL
ARHGAP22	58504	hgsc.bcm.edu	hg19	10	49661399	49661399	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARHGAP22	NM_001256024	exon8	c.985delG	p.G329fs	.	.	193.0	12.0	169.0	0.0	.	94	.	.	Atlas-INDEL
PPIL2	23759	hgsc.bcm.edu	hg19	22	22043036	22043036	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPIL2	NM_014337	exon15	c.1036delT	p.W346fs	.	.	183.0	11.0	125.0	0.0	.	38	.	.	Atlas-INDEL
CPNE7	27132	hgsc.bcm.edu	hg19	16	89649911	89649911	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CPNE7	NM_014427	exon4	c.556delA	p.R186fs	.	.	146.0	10.0	136.0	0.0	.	56	.	.	Atlas-INDEL
TUBGCP6	85378	hgsc.bcm.edu	hg19	22	50659190	50659190	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TUBGCP6	NM_020461	exon16	c.3599delA	p.E1200fs	.	.	157.0	11.0	126.0	0.0	.	132	.	.	Atlas-INDEL
RABGEF1	27342	hgsc.bcm.edu	hg19	7	66270287	66270287	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RABGEF1	NM_014504	exon8	c.980delA	p.N327fs	.	.	162.0	10.0	115.0	0.0	.	56	.	.	Atlas-INDEL
FAM186A	121006	hgsc.bcm.edu	hg19	12	50748485	50748485	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM186A	NM_001145475	exon4	c.2131delT	p.L711X	.	.	147.0	10.0	114.0	0.0	.	181	.	.	Atlas-INDEL
OR5M3	219482	hgsc.bcm.edu	hg19	11	56237709	56237709	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR5M3	NM_001004742	exon1	c.266delC	p.T89fs	.	.	148.0	10.0	113.0	0.0	.	103	.	.	Atlas-INDEL
IFT52	51098	hgsc.bcm.edu	hg19	20	42249541	42249541	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IFT52	NM_016004	exon9	c.743delA	p.N248fs	.	.	169.0	11.0	160.0	0.0	.	40	.	.	Atlas-INDEL
HIAT1	64645	hgsc.bcm.edu	hg19	1	100525518	100525518	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HIAT1	NM_033055	exon4	c.327delG	p.V109fs	.	.	194.0	12.0	177.0	0.0	.	46	.	.	Atlas-INDEL
SYCP1	6847	hgsc.bcm.edu	hg19	1	115487538	115487538	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SYCP1	NM_003176	exon25	c.2088delG	p.Q696fs	.	.	153.0	10.0	122.0	0.0	.	149	.	.	Atlas-INDEL
PITRM1	10531	hgsc.bcm.edu	hg19	10	3207693	3207693	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PITRM1	NM_014889	exon5	c.446delC	p.S149fs	.	.	147.0	10.0	106.0	0.0	.	109	.	.	Atlas-INDEL
ZNF804A	91752	hgsc.bcm.edu	hg19	2	185800708	185800708	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF804A	NM_194250	exon4	c.584delC	p.A195fs	.	.	134.0	10.0	115.0	0.0	.	322	.	.	Atlas-INDEL
DES	1674	hgsc.bcm.edu	hg19	2	220286238	220286238	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DES	NM_001927	exon6	c.1199delT	p.V400fs	.	.	106.0	10.0	91.0	0.0	.	53	.	.	Atlas-INDEL
PSRC1	84722	hgsc.bcm.edu	hg19	1	109823600	109823600	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PSRC1	NM_001032291	exon6	c.704delG	p.R235fs	.	.	163.0	10.0	132.0	0.0	.	12	.	.	Atlas-INDEL
CRTAM	56253	hgsc.bcm.edu	hg19	11	122722405	122722405	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CRTAM	NM_019604	exon3	c.197delT	p.L66X	.	.	186.0	15.0	137.0	0.0	.	50	.	.	Atlas-INDEL
LRRC34	151827	hgsc.bcm.edu	hg19	3	169514647	169514647	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LRRC34	NM_001172779	exon8	c.795delT	p.N265fs	.	.	212.0	13.0	152.0	0.0	.	30	.	.	Atlas-INDEL
KIFC2	90990	hgsc.bcm.edu	hg19	8	145693776	145693776	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIFC2	NM_145754	exon8	c.874delG	p.A292fs	.	.	163.0	10.0	99.0	0.0	.	53	.	.	Atlas-INDEL
PPYR1	5540	hgsc.bcm.edu	hg19	10	47087668	47087668	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPYR1	NM_005972	exon3	c.884delT	p.I295fs	.	.	152.0	11.0	155.0	0.0	.	54	.	.	Atlas-INDEL
FIP1L1	81608	hgsc.bcm.edu	hg19	4	54265950	54265950	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FIP1L1	NM_030917	exon10	c.758delC	p.T253fs	.	.	138.0	11.0	116.0	0.0	.	60	.	.	Atlas-INDEL
TLE2	7089	hgsc.bcm.edu	hg19	19	3013796	3013796	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TLE2	NM_001144761	exon12	c.787delA	p.S263fs	.	.	160.0	10.0	133.0	0.0	.	35	.	.	Atlas-INDEL
PYGO2	90780	hgsc.bcm.edu	hg19	1	154931663	154931663	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PYGO2	NM_138300	exon3	c.814delC	p.P272fs	.	.	205.0	14.0	95.0	0.0	.	32	.	.	Atlas-INDEL
PCBD2	84105	hgsc.bcm.edu	hg19	5	134296318	134296318	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCBD2	NM_032151	exon4	c.339delC	p.T113fs	.	.	198.0	15.0	166.0	0.0	.	3	.	.	Atlas-INDEL
CLCA2	9635	hgsc.bcm.edu	hg19	1	86916286	86916286	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLCA2	NM_006536	exon12	c.2024delA	p.Y675fs	.	.	128.0	11.0	78.0	0.0	.	102	.	.	Atlas-INDEL
ZNF629	23361	hgsc.bcm.edu	hg19	16	30795213	30795213	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF629	NM_001080417	exon3	c.437delC	p.A146fs	.	.	139.0	10.0	28.0	0.0	.	44	.	.	Atlas-INDEL
TMEM63A	9725	hgsc.bcm.edu	hg19	1	226055702	226055702	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMEM63A	NM_014698	exon7	c.401delA	p.E134fs	.	.	178.0	11.0	73.0	0.0	.	75	.	.	Atlas-INDEL
UNC13C	440279	hgsc.bcm.edu	hg19	15	54860046	54860046	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UNC13C	NM_001080534	exon28	c.6006delG	p.E2002fs	.	.	160.0	10.0	137.0	0.0	.	674	.	.	Atlas-INDEL
MERTK	10461	hgsc.bcm.edu	hg19	2	112754915	112754915	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MERTK	NM_006343	exon10	c.1465delG	p.A489fs	.	.	172.0	11.0	117.0	0.0	.	112	.	.	Atlas-INDEL
FUS	2521	hgsc.bcm.edu	hg19	16	31202283	31202283	+	Splice_Site	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FUS	NM_001170937	exon14	c.1382-2G>-	.	.	.	134.0	10.0	110.0	0.0	.	52	.	.	Atlas-INDEL
RBM24	221662	hgsc.bcm.edu	hg19	6	17281858	17281858	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RBM24	NM_001143942	exon1	c.45delC	p.V15fs	.	.	282.0	19.0	167.0	0.0	.	40	.	.	Atlas-INDEL
DCTN2	10540	hgsc.bcm.edu	hg19	12	57926541	57926541	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DCTN2	NM_001261412	exon10	c.834delG	p.L278fs	.	.	155.0	16.0	141.0	0.0	.	51	.	.	Atlas-INDEL
PRDM15	63977	hgsc.bcm.edu	hg19	21	43256618	43256618	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRDM15	NM_022115	exon16	c.2241delC	p.F747fs	.	.	204.0	14.0	179.0	0.0	.	110	.	.	Atlas-INDEL
BCL9	607	hgsc.bcm.edu	hg19	1	147084890	147084890	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BCL9	NM_004326	exon5	c.261delT	p.N87fs	.	.	244.0	16.0	108.0	0.0	.	150	.	.	Atlas-INDEL
MMP27	64066	hgsc.bcm.edu	hg19	11	102564704	102564704	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MMP27	NM_022122	exon8	c.1127delT	p.I376fs	.	.	164.0	10.0	152.0	0.0	.	84	.	.	Atlas-INDEL
SCN9A	6335	hgsc.bcm.edu	hg19	2	167094772	167094772	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SCN9A	NM_002977	exon20	c.3601delG	p.E1201fs	.	.	234.0	17.0	213.0	0.0	.	296	.	.	Atlas-INDEL
FREM2	341640	hgsc.bcm.edu	hg19	13	39265691	39265691	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FREM2	NM_207361	exon1	c.4209delT	p.N1403fs	.	.	157.0	10.0	89.0	0.0	.	385	.	.	Atlas-INDEL
CACNA2D1	781	hgsc.bcm.edu	hg19	7	81624216	81624216	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CACNA2D1	NM_000722	exon20	c.1703delC	p.T568fs	.	.	240.0	16.0	216.0	0.0	.	191	.	.	Atlas-INDEL
SECISBP2	79048	hgsc.bcm.edu	hg19	9	91943618	91943618	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.,1	SECISBP2	NM_024077	exon5	c.617delC	p.A206fs	.	.	186.0	12.0	165.0	0.0	.	64	.	.	Atlas-INDEL
WDR45B	56270	hgsc.bcm.edu	hg19	17	80575188	80575188	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_019613	exon8	c.791delG	p.R264fs	.	.	148.0	11.0	150.0	0.0	.	.	.	.	Atlas-INDEL
ZSWIM2	151112	hgsc.bcm.edu	hg19	2	187713741	187713741	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZSWIM2	NM_182521	exon1	c.118delA	p.T40fs	.	.	244.0	16.0	193.0	0.0	.	119	.	.	Atlas-INDEL
COX5B	1329	hgsc.bcm.edu	hg19	2	98264520	98264520	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COX5B	NM_001862	exon4	c.338delG	p.C113fs	.	.	215.0	13.0	183.0	0.0	.	9	.	.	Atlas-INDEL
NRBP2	340371	hgsc.bcm.edu	hg19	8	144919257	144919257	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NRBP2	NM_178564	exon14	c.1218delG	p.K406fs	.	.	231.0	14.0	146.0	0.0	.	20	.	.	Atlas-INDEL
CUL9	23113	hgsc.bcm.edu	hg19	6	43172517	43172517	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CUL9	NM_015089	exon22	c.4370delG	p.S1457fs	.	.	172.0	11.0	99.0	0.0	.	248	.	.	Atlas-INDEL
IFNAR1	3454	hgsc.bcm.edu	hg19	21	34707933	34707933	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IFNAR1	NM_000629	exon2	c.179delC	p.T60fs	.	.	116.0	11.0	99.0	0.0	.	44	.	.	Atlas-INDEL
FN1	2335	hgsc.bcm.edu	hg19	2	216230250	216230250	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FN1	NM_212482	exon43	c.7123delG	p.G2375fs	.	.	151.0	11.0	163.0	0.0	.	521	.	.	Atlas-INDEL
NDUFAF6	137682	hgsc.bcm.edu	hg19	8	96060727	96060727	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_152416	exon7	c.756delT	p.D252fs	.	.	178.0	11.0	69.0	0.0	.	.	.	.	Atlas-INDEL
COG2	22796	hgsc.bcm.edu	hg19	1	230800279	230800279	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COG2	NM_007357	exon5	c.430delG	p.E144fs	.	.	178.0	11.0	86.0	0.0	.	61	.	.	Atlas-INDEL
SIN3A	25942	hgsc.bcm.edu	hg19	15	75693144	75693144	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SIN3A	NM_001145358	exon11	c.1665delC	p.G555fs	.	.	142.0	10.0	116.0	0.0	.	152	.	.	Atlas-INDEL
ATP2C2	9914	hgsc.bcm.edu	hg19	16	84456800	84456800	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATP2C2	NM_014861	exon10	c.849delT	p.P283fs	.	.	162.0	10.0	172.0	0.0	.	75	.	.	Atlas-INDEL
NFE2	4778	hgsc.bcm.edu	hg19	12	54686722	54686722	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NFE2	NM_001261461	exon4	c.559delA	p.N187fs	.	.	155.0	11.0	141.0	0.0	.	28	.	.	Atlas-INDEL
DIEXF	27042	hgsc.bcm.edu	hg19	1	210010321	210010321	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DIEXF	NM_014388	exon6	c.826delA	p.T276fs	.	.	162.0	11.0	110.0	0.0	.	97	.	.	Atlas-INDEL
NOM1	64434	hgsc.bcm.edu	hg19	7	156754952	156754952	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOM1	NM_138400	exon5	c.1739delC	p.A580fs	.	.	228.0	14.0	174.0	0.0	.	73	.	.	Atlas-INDEL
BSN	8927	hgsc.bcm.edu	hg19	3	49692373	49692373	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BSN	NM_003458	exon5	c.5383delA	p.R1795fs	.	.	164.0	10.0	143.0	0.0	.	272	.	.	Atlas-INDEL
ARNT2	9915	hgsc.bcm.edu	hg19	15	80867380	80867380	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARNT2	NM_014862	exon14	c.1441delG	p.E481fs	.	.	165.0	10.0	124.0	0.0	.	88	.	.	Atlas-INDEL
DGKZ	8525	hgsc.bcm.edu	hg19	11	46396358	46396358	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DGKZ	NM_001105540	exon19	c.2130delA	p.K710fs	.	.	161.0	10.0	96.0	0.0	.	199	.	.	Atlas-INDEL
TNRC18	84629	hgsc.bcm.edu	hg19	7	5353050	5353050	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNRC18	NM_001080495	exon27	c.7473delC	p.G2491fs	.	.	168.0	11.0	91.0	0.0	.	311	.	.	Atlas-INDEL
UBAP2	55833	hgsc.bcm.edu	hg19	9	34017099	34017099	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UBAP2	NM_018449	exon2	c.49delC	p.P17fs	.	.	135.0	11.0	107.0	0.0	.	82	.	.	Pindel