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
MEGF6	1953	hgsc.bcm.edu	hg19	1	3417558	3417558	+	Silent	SNP	G	G	C	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	MEGF6	NM_001409	exon20	c.C2547G	p.P849P	CCACCCGGGGGCA	.	254.0	112.0	152.0	0.0	.	91	.	.	Atlas-SNP
TP73	7161	hgsc.bcm.edu	hg19	1	3599745	3599745	+	Splice_Site	SNP	G	G	A	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	TP73	NM_001204188	exon3	c.186+1G>A	.	GTCATGGTGAGTG	.	162.0	55.0	103.0	0.0	.	54	.	.	Atlas-SNP
WDR47	22911	hgsc.bcm.edu	hg19	1	109538417	109538417	+	Silent	SNP	G	G	C	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	WDR47	NM_001142550	exon8	c.C1500G	p.G500G	ACCAAGGCCATCC	.	159.0	42.0	154.0	0.0	.	56	.	.	Atlas-SNP
TUFT1	7286	hgsc.bcm.edu	hg19	1	151546817	151546817	+	Silent	SNP	G	G	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	TUFT1	NM_020127	exon8	c.G666T	p.V222V	CAGAGTGGAGCAG	.	384.0	87.0	300.0	0.0	.	32	.	.	Atlas-SNP
IQGAP3	128239	hgsc.bcm.edu	hg19	1	156520099	156520099	+	Silent	SNP	G	G	A	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	IQGAP3	NM_178229	exon16	c.C1779T	p.R593R	TCCCTGGCGGATC	.	95.0	46.0	68.0	0.0	.	146	.	.	Atlas-SNP
FCRL1	115350	hgsc.bcm.edu	hg19	1	157772291	157772291	+	Silent	SNP	C	C	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	FCRL1	NM_001159397	exon4	c.G483A	p.Q161Q	TGAACGCTGGGTC	.	136.0	29.0	133.0	0.0	.	164	.	.	Atlas-SNP
KCNJ10	3766	hgsc.bcm.edu	hg19	1	160012115	160012115	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	KCNJ10	NM_002241	exon2	c.C208T	p.L70F	AGAAGAGCAGAAG	.	106.0	19.0	123.0	0.0	.	58	.	.	Atlas-SNP
DUSP27	92235	hgsc.bcm.edu	hg19	1	167095331	167095331	+	Silent	SNP	C	C	A	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	DUSP27	NM_001080426	exon5	c.C963A	p.A321A	CAGCGCCAGCCAC	.	61.0	25.0	69.0	0.0	.	235	.	.	Atlas-SNP
KISS1	3814	hgsc.bcm.edu	hg19	1	204159709	204159709	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	KISS1	NM_002256	exon3	c.A320C	p.K107T	AGGTCCTTCTCCC	.	129.0	30.0	105.0	0.0	.	6	.	.	Atlas-SNP
NBAS	51594	hgsc.bcm.edu	hg19	2	15651378	15651378	+	Silent	SNP	C	C	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	NBAS	NM_015909	exon10	c.G843A	p.P281P	ATAATACGGTGAT	.	228.0	62.0	258.0	0.0	.	246	.	.	Atlas-SNP
PUM2	23369	hgsc.bcm.edu	hg19	2	20490528	20490528	+	Silent	SNP	C	C	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	PUM2	NM_015317	exon9	c.G1176A	p.Q392Q	AGGACGCTGACCT	.	171.0	43.0	209.0	0.0	.	91	.	.	Atlas-SNP
VIT	5212	hgsc.bcm.edu	hg19	2	37041407	37041407	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	VIT	NM_053276	exon16	c.A1985C	p.H662P	GAGACCACTCCTT	.	88.0	21.0	110.0	0.0	.	138	.	.	Atlas-SNP
SLC25A12	8604	hgsc.bcm.edu	hg19	2	172650192	172650192	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	SLC25A12	NM_003705	exon14	c.C1391A	p.P464H	ACTCTGGGTCCCG	.	118.0	23.0	127.0	0.0	.	59	.	.	Atlas-SNP
WHSC1	7468	hgsc.bcm.edu	hg19	4	1961231	1961231	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	WHSC1	NM_133335	exon17	c.A3019G	p.T1007A	ATCTACACAGCGG	.	143.0	62.0	195.0	0.0	.	180	.	.	Atlas-SNP
TLR6	10333	hgsc.bcm.edu	hg19	4	38829121	38829121	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	TLR6	NM_006068	exon2	c.T1974A	p.S658R	CAATTCACTTTTC	.	87.0	43.0	137.0	0.0	.	67	.	.	Atlas-SNP
PCDHA12	56137	hgsc.bcm.edu	hg19	5	140255592	140255592	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	PCDHA12	NM_018903	exon1	c.G535T	p.E179X	AATTTTGAGCTTA	.	101.0	37.0	185.0	0.0	.	196	.	.	Atlas-SNP
FOXC1	2296	hgsc.bcm.edu	hg19	6	1612016	1612016	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	FOXC1	NM_001453	exon1	c.C1336G	p.H446D	CTGAGTCACGGCG	.	120.0	5.0	157.0	0.0	.	19	.	.	Atlas-SNP
SCAND3	114821	hgsc.bcm.edu	hg19	6	28539781	28539781	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	SCAND3	NM_052923	exon4	c.A3885C	p.L1295F	TATATTTAAACTG	.	230.0	52.0	211.0	0.0	.	156	.	.	Atlas-SNP
GUCA1A	2978	hgsc.bcm.edu	hg19	6	42146134	42146134	+	Silent	SNP	C	C	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	GUCA1A	NM_000409	exon4	c.C318T	p.C106C	CGGCTGCATTGAC	.	57.0	15.0	79.0	0.0	.	18	.	.	Atlas-SNP
CAPN11	11131	hgsc.bcm.edu	hg19	6	44148397	44148397	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	CAPN11	NM_007058	exon16	c.G1744T	p.E582X	GCAGGAGAGGTGA	.	126.0	28.0	111.0	0.0	.	66	.	.	Atlas-SNP
PHF3	23469	hgsc.bcm.edu	hg19	6	64408443	64408443	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	PHF3	NM_015153	exon7	c.A2930G	p.Y977C	CTAAATATAAGAA	.	479.0	119.0	497.0	0.0	.	191	.	.	Atlas-SNP
DAGLB	221955	hgsc.bcm.edu	hg19	7	6474641	6474641	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	DAGLB	NM_139179	exon4	c.A430G	p.I144V	CAGCGATGATGAT	.	110.0	26.0	119.0	0.0	.	74	.	.	Atlas-SNP
HOXA10	3206	hgsc.bcm.edu	hg19	7	27211712	27211712	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	HOXA10	NM_018951	exon2	c.C1039A	p.Q347K	GTGTCTGGTGCTT	.	129.0	39.0	165.0	0.0	.	55	.	.	Atlas-SNP
ASB10	136371	hgsc.bcm.edu	hg19	7	150883974	150883974	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	ASB10	NM_001142459	exon1	c.G244C	p.A82P	CAGGAGCCAGGCC	.	111.0	30.0	118.0	0.0	.	99	.	.	Atlas-SNP
CDH17	1015	hgsc.bcm.edu	hg19	8	95161092	95161092	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	CDH17	NM_004063	exon14	c.A1807T	p.R603W	CTCCCCTCAGTGA	.	68.0	14.0	73.0	0.0	.	119	.	.	Atlas-SNP
SNX31	169166	hgsc.bcm.edu	hg19	8	101624286	101624286	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	SNX31,extremity,malignant_melanoma,0,2	SNX31	NM_152628	exon7	c.C553T	p.P185S	CATAAGGGAGTTC	.	121.0	13.0	130.0	1.0	.	66	.	.	Atlas-SNP
TRPM6	140803	hgsc.bcm.edu	hg19	9	77401029	77401029	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	TRPM6	NM_017662	exon21	c.G2680A	p.E894K	CAGGTTCTGAAAT	.	158.0	44.0	201.0	0.0	.	377	.	.	Atlas-SNP
TRPM6	140803	hgsc.bcm.edu	hg19	9	77427340	77427340	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	TRPM6	NM_017662	exon12	c.C1318A	p.L440M	GTTCCAGGGCATC	.	99.0	4.0	93.0	0.0	.	377	.	.	Atlas-SNP
ST6GALNAC6	30815	hgsc.bcm.edu	hg19	9	130649801	130649801	+	Silent	SNP	G	G	A	rs145170753		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	ST6GALNAC6	NM_013443	exon6	c.C774T	p.H258H	ATGCACGTGGTCA	.	147.0	15.0	120.0	0.0	.	36	.	G|1.000;A|0.000	Atlas-SNP
OR2D2	120776	hgsc.bcm.edu	hg19	11	6913415	6913415	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	OR2D2	NM_003700	exon1	c.T317A	p.I106N	CCAAAAATGAGGA	.	152.0	34.0	281.0	0.0	.	52	.	.	Atlas-SNP
EEF1G	1937	hgsc.bcm.edu	hg19	11	62327913	62327913	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	EEF1G	NM_001404	exon8	c.G871A	p.D291N	ATTCATCCAACAC	.	66.0	16.0	118.0	0.0	.	33	.	.	Atlas-SNP
MACROD1	28992	hgsc.bcm.edu	hg19	11	63767228	63767228	+	Silent	SNP	G	G	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	MACROD1	NM_014067	exon6	c.C672A	p.I224I	TGTGTGGATGACG	.	59.0	12.0	109.0	0.0	.	17	.	.	Atlas-SNP
AKAP3	10566	hgsc.bcm.edu	hg19	12	4736121	4736121	+	Silent	SNP	G	G	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	AKAP3	NM_006422	exon4	c.C1947A	p.A649A	AGAAAGGGCACCA	.	77.0	24.0	76.0	0.0	.	212	.	.	Atlas-SNP
COL2A1	1280	hgsc.bcm.edu	hg19	12	48368646	48368646	+	Splice_Site	SNP	C	C	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	COL2A1	NM_033150	exon52	c.3680-1G>A	.	AGTCTCCTGCAGG	.	55.0	16.0	66.0	0.0	.	368	.	.	Atlas-SNP
SPATS2	65244	hgsc.bcm.edu	hg19	12	49884489	49884489	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	SPATS2	NM_023071	exon6	c.A239G	p.E80G	TCAAAGAATGGAC	.	81.0	21.0	77.0	0.0	.	43	.	.	Atlas-SNP
HSD17B6	8630	hgsc.bcm.edu	hg19	12	57180989	57180989	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	HSD17B6	NM_003725	exon5	c.A817C	p.T273P	GCTCTGACATCGG	.	79.0	18.0	128.0	0.0	.	26	.	.	Atlas-SNP
RASSF9	9182	hgsc.bcm.edu	hg19	12	86198626	86198626	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	RASSF9	NM_005447	exon2	c.C1162T	p.P388S	TACTGGGAACCTC	.	146.0	40.0	168.0	0.0	.	100	.	.	Atlas-SNP
BRAP	8315	hgsc.bcm.edu	hg19	12	112082089	112082089	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	BRAP	NM_006768	exon12	c.G1693A	p.A565T	CCATGGCGATGTT	.	75.0	18.0	80.0	0.0	.	42	.	.	Atlas-SNP
HECTD4	283450	hgsc.bcm.edu	hg19	12	112638476	112638476	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	.	NM_001109662	exon55	c.G8131C	p.V2711L	GTGTGACCAGCCC	.	162.0	48.0	191.0	0.0	.	.	.	.	Atlas-SNP
GOLGA3	2802	hgsc.bcm.edu	hg19	12	133358980	133358980	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	GOLGA3	NM_005895	exon17	c.G3367A	p.G1123S	CGAGGCCCGTAAG	.	123.0	33.0	115.0	0.0	.	234	.	.	Atlas-SNP
ATL1	51062	hgsc.bcm.edu	hg19	14	51060573	51060573	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	ATL1	NM_015915	exon5	c.T532G	p.L178V	TATAACTTATCCC	.	39.0	8.0	68.0	0.0	.	46	.	.	Atlas-SNP
ATG2B	55102	hgsc.bcm.edu	hg19	14	96752158	96752158	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	ATG2B	NM_018036	exon42	c.G6171T	p.M2057I	GTTTCTCATGCCA	.	87.0	33.0	141.0	0.0	.	169	.	.	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	hg19	16	701923	701923	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	WDR90	NM_145294	exon9	c.A937C	p.S313R	TTCCATAGCCTTG	.	44.0	9.0	69.0	0.0	.	107	.	.	Atlas-SNP
ZNF423	23090	hgsc.bcm.edu	hg19	16	49671334	49671334	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	ZNF423	NM_015069	exon4	c.A1729T	p.I577F	TCAGGATGGAGCC	.	64.0	27.0	135.0	0.0	.	463	.	.	Atlas-SNP
PPM1E	22843	hgsc.bcm.edu	hg19	17	56833448	56833448	+	Silent	SNP	G	G	A	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	PPM1E	NM_014906	exon1	c.G90A	p.E30E	CGGCGAGCCGGAG	.	230.0	12.0	212.0	0.0	.	97	.	.	Atlas-SNP
PPM1E	22843	hgsc.bcm.edu	hg19	17	56833451	56833451	+	Silent	SNP	G	G	C	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	PPM1E	NM_014906	exon1	c.G93C	p.P31P	CGAGCCGGAGCCG	.	226.0	17.0	209.0	0.0	.	97	.	.	Atlas-SNP
TLK2	11011	hgsc.bcm.edu	hg19	17	60679436	60679436	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	TLK2	NM_006852	exon19	c.G1754T	p.G585V	CGTGTGGAGAGAT	.	109.0	31.0	84.0	0.0	.	223	.	.	Atlas-SNP
TEX2	55852	hgsc.bcm.edu	hg19	17	62265633	62265633	+	Silent	SNP	A	A	C	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	TEX2	NM_018469	exon5	c.T2340G	p.L780L	GTCGAGAAGCATC	.	50.0	20.0	74.0	0.0	.	89	.	.	Atlas-SNP
APCDD1	147495	hgsc.bcm.edu	hg19	18	10471890	10471890	+	Silent	SNP	G	G	A	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	APCDD1	NM_153000	exon3	c.G606A	p.V202V	GGCCGTGAACTTT	.	89.0	47.0	127.0	0.0	.	57	.	.	Atlas-SNP
ZNF396	252884	hgsc.bcm.edu	hg19	18	32949594	32949594	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	ZNF396	NM_145756	exon4	c.C593A	p.S198Y	GAAGCAGATTTCA	.	83.0	38.0	103.0	0.0	.	28	.	.	Atlas-SNP
ZNF441	126068	hgsc.bcm.edu	hg19	19	11891848	11891848	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	ZNF441_ENST00000357901,NS,carcinoma,0,2	ZNF441	NM_152355	exon4	c.C1209G	p.F403L	TGATTTCTATTAC	.	77.0	20.0	87.0	0.0	.	123	.	.	Atlas-SNP
SYDE1	85360	hgsc.bcm.edu	hg19	19	15221118	15221118	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	SYDE1	NM_033025	exon3	c.C1034T	p.P345L	ACCGGCCCTGTGC	.	40.0	11.0	45.0	0.0	.	44	.	.	Atlas-SNP
MAP1S	55201	hgsc.bcm.edu	hg19	19	17837234	17837234	+	Silent	SNP	G	G	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	MAP1S	NM_018174	exon5	c.G1041T	p.R347R	GTCGCGGCTGGCG	.	26.0	11.0	25.0	0.0	.	74	.	.	Atlas-SNP
ZNF781	163115	hgsc.bcm.edu	hg19	19	38160695	38160695	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	ZNF781	NM_152605	exon4	c.T355C	p.C119R	GCTTACATTTATA	.	93.0	28.0	84.0	0.0	.	66	.	.	Atlas-SNP
TGFB1	7040	hgsc.bcm.edu	hg19	19	41858864	41858864	+	Missense_Mutation	SNP	C	C	T	rs199758510	bycluster	TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	TGFB1	NM_000660	exon1	c.G86A	p.G29E	GATAGTCCCGCGG	.	68.0	17.0	77.0	0.0	.	27	.	.	Atlas-SNP
KLK12	43849	hgsc.bcm.edu	hg19	19	51534168	51534168	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	KLK12	NM_019598	exon5	c.C467A	p.P156Q	AGATCCGGGAATG	.	82.0	19.0	117.0	0.0	.	30	.	.	Atlas-SNP
MAVS	57506	hgsc.bcm.edu	hg19	20	3845305	3845305	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	MAVS	NM_020746	exon6	c.A1028G	p.N343S	TCACCAATCCAGC	.	65.0	19.0	84.0	0.0	.	34	.	.	Atlas-SNP
TRMT6	51605	hgsc.bcm.edu	hg19	20	5919267	5919267	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	TRMT6	NM_015939	exon11	c.C1408T	p.L470F	ATTTGAGGCTGGT	.	95.0	24.0	93.0	0.0	.	28	.	.	Atlas-SNP
SOGA1	140710	hgsc.bcm.edu	hg19	20	35422556	35422556	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	SOGA1	NM_080627	exon14	c.G3929A	p.R1310Q	CGCTGCCGTGAGA	.	83.0	21.0	90.0	0.0	.	136	.	.	Atlas-SNP
ARFGEF2	10564	hgsc.bcm.edu	hg19	20	47558450	47558450	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	ARFGEF2	NM_006420	exon3	c.T202C	p.Y68H	GACAAGTATTTTC	.	68.0	17.0	65.0	0.0	.	160	.	.	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	hg19	22	26348383	26348383	+	Silent	SNP	A	A	G	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	MYO18B	NM_032608	exon38	c.A5964G	p.R1988R	TAAGAGATTTGAG	.	125.0	43.0	127.0	0.0	.	322	.	.	Atlas-SNP
TRMU	55687	hgsc.bcm.edu	hg19	22	46733707	46733707	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	TRMU	NM_018006	exon2	c.C114A	p.N38K	GAAGAACTGGGAC	.	123.0	35.0	127.0	0.0	.	23	.	.	Atlas-SNP
RIBC1	158787	hgsc.bcm.edu	hg19	X	53457918	53457918	+	Silent	SNP	T	T	C	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	RIBC1	NM_001031745	exon8	c.T1122C	p.F374F	GCAGTTTAACACC	.	163.0	53.0	108.0	0.0	.	20	.	.	Atlas-SNP
RAD51AP2	729475	hgsc.bcm.edu	hg19	2	17698736	17698737	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.,2	RAD51AP2	NM_001099218	exon1	c.947_948insA	p.T316fs	.	.	68.0	22.0	89.0	0.0	.	134	.	.	Atlas-Indel,Pindel
VEGFA	7422	hgsc.bcm.edu	hg19	6	43738861	43738875	+	In_Frame_Del	DEL	GCCCGGGCCTCGGGC	GCCCGGGCCTCGGGC	-	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	GCCCGGGCCTCGGGC	GCCCGGGCCTCGGGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	VEGFA	NM_001204385	exon1	c.417_431del	p.139_144del	.	.	46.0	10.0	56.0	0.0	.	21	.	.	Atlas-INDEL
DHX57	90957	hgsc.bcm.edu	hg19	2	39046078	39046104	+	Frame_Shift_Del	DEL	CTTCTTTTGTACTTAGCTGCCATCCCT	CTTCTTTTGTACTTAGCTGCCATCCCT	-	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	CTTCTTTTGTACTTAGCTGCCATCCCT	CTTCTTTTGTACTTAGCTGCCATCCCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	DHX57	NM_198963	exon19	c.3388_3413del	p.1130_1138del	.	.	80.0	11.0	114.0	0.0	.	127	.	.	Atlas-Indel,Pindel
RALGPS1	9649	hgsc.bcm.edu	hg19	9	129831597	129831597	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	RALGPS1	NM_001190729	exon8	c.571delA	p.I191fs	.	.	94.0	28.0	113.0	0.0	.	86	.	.	Atlas-Indel,Pindel
IL23R	149233	hgsc.bcm.edu	hg19	1	67666504	67666505	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	IL23R	NM_144701	exon5	c.576_577insT	p.Y192fs	.	.	296.0	83.0	360.0	0.0	.	52	.	.	Atlas-Indel,Pindel
ANKRD20A3	441425	hgsc.bcm.edu	hg19	9	42372341	42372341	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	.	NM_001012419	exon3	c.457delC	p.L153fs	.	.	140.0	20.0	134.0	0.0	.	.	.	.	Atlas-INDEL
ARSD	414	hgsc.bcm.edu	hg19	X	2827944	2827966	+	Frame_Shift_Del	DEL	GGCCGGGAGCACCCCCGGCCAGT	GGCCGGGAGCACCCCCGGCCAGT	-	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	GGCCGGGAGCACCCCCGGCCAGT	GGCCGGGAGCACCCCCGGCCAGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	ARSD	NM_001669	exon8	c.1191_1213del	p.397_405del	.	.	287.0	135.0	283.0	0.0	.	47	.	.	Atlas-Indel,Pindel
ANKRD20A3	441425	hgsc.bcm.edu	hg19	9	67930803	67930803	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	.	NM_001012419	exon3	c.457delC	p.L153fs	.	.	87.0	15.0	83.0	0.0	.	.	.	.	Atlas-INDEL
ANKRD20A4	728747	hgsc.bcm.edu	hg19	9	69386021	69386021	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	ANKRD20A4	NM_001098805	exon3	c.457delC	p.L153fs	.	.	116.0	13.0	124.0	0.0	.	38	.	.	Atlas-INDEL
TNFAIP6	7130	hgsc.bcm.edu	hg19	2	152235980	152235981	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	TNFAIP6	NM_007115	exon6	c.767_768insA	p.G256fs	.	.	165.0	34.0	172.0	0.0	.	98	.	.	Atlas-Indel,Pindel
TP53	7157	hgsc.bcm.edu	hg19	17	7579559	7579559	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	TP53	NM_001126112	exon4	c.129delG	p.L43fs	.	.	58.0	26.0	92.0	0.0	.	33396	.	.	Atlas-Indel,Pindel
RERE	473	hgsc.bcm.edu	hg19	1	8416253	8416255	+	In_Frame_Del	DEL	GGT	GGT	-	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	GGT	GGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	RERE	NM_012102	exon22	c.4392_4394del	p.1464_1465del	.	.	185.0	57.0	105.0	0.0	.	129	.	.	Atlas-Indel,Pindel
RB1	5925	hgsc.bcm.edu	hg19	13	49037924	49037924	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	RB1	NM_000321	exon21	c.2163delC	p.F721fs	.	.	397.0	115.0	443.0	0.0	.	1068	.	.	Pindel
VEGFA	7422	hgsc.bcm.edu	hg19	6	43738861	43738876	+	Frame_Shift_Del	DEL	GCCCGGGCCTCGGGCC	GCCCGGGCCTCGGGCC	-	novel		TCGA-5C-AAPD-01A-21D-A38X-10	TCGA-5C-AAPD-10A-01D-A38X-10	GCCCGGGCCTCGGGCC	GCCCGGGCCTCGGGCC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fb2728b8-fc2d-4f40-98b0-649f020fd475	94fbe599-361a-4bfb-9e37-dae2c10b4ddd	.	VEGFA	NM_001171622	exon1	c.417_432del	p.139_144del	.	.	51.0	13.0	60.0	0.0	.	21	.	.	Pindel