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
NADK	65220	hgsc.bcm.edu	hg19	1	1684446	1684446	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	NADK	NM_001198994	exon14	c.C1673A	p.P558H	CTCACGGGGTCCC	.	128.0	43.0	197.0	0.0	.	79	.	.	Atlas-SNP
PLCH2	9651	hgsc.bcm.edu	hg19	1	2430060	2430060	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	PLCH2	NM_014638	exon17	c.G2323A	p.D775N	CCGCGCGACTCCA	.	128.0	31.0	237.0	0.0	.	131	.	.	Atlas-SNP
AK2	204	hgsc.bcm.edu	hg19	1	33478935	33478935	+	Silent	SNP	G	G	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	AK2	NM_013411	exon6	c.C567A	p.A189A	GTGGTAGGCTTGC	.	82.0	4.0	106.0	0.0	.	27	.	.	Atlas-SNP
KIAA0319L	79932	hgsc.bcm.edu	hg19	1	35972470	35972470	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	KIAA0319L	NM_024874	exon3	c.G409A	p.A137T	CATCTGCAGTTTG	.	140.0	45.0	137.0	0.0	.	156	.	.	Atlas-SNP
AMPD2	271	hgsc.bcm.edu	hg19	1	110173592	110173592	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	AMPD2	NM_004037	exon18	c.T2458A	p.Y820N	CCCAACTATACCA	.	238.0	60.0	304.0	0.0	.	75	.	.	Atlas-SNP
PGLYRP4	57115	hgsc.bcm.edu	hg19	1	153317739	153317739	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	PGLYRP4	NM_020393	exon4	c.C259A	p.L87M	ACTCCAGTCCAGG	.	57.0	36.0	27.0	0.0	.	45	.	.	Atlas-SNP
LYST	1130	hgsc.bcm.edu	hg19	1	235892901	235892901	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	LYST	NM_000081	exon37	c.T9101C	p.L3034S	CCTAGTAACAATT	.	95.0	17.0	51.0	0.0	.	370	.	.	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	hg19	1	240493999	240493999	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	FMN2	NM_020066	exon11	c.G4534T	p.D1512Y	CAGGCAGATGGCT	.	141.0	60.0	74.0	0.0	.	451	.	.	Atlas-SNP
KLF11	8462	hgsc.bcm.edu	hg19	2	10188153	10188153	+	Missense_Mutation	SNP	C	C	G	rs370039403	alternate_allele	TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	KLF11	NM_003597	exon3	c.C689G	p.S230C	TGGTGTCCTGTCA	.	64.0	17.0	102.0	0.0	.	45	.	.	Atlas-SNP
ABCG5	64240	hgsc.bcm.edu	hg19	2	44041621	44041621	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	ABCG5	NM_022436	exon12	c.C1757G	p.T586S	CCACAAGTGAAAT	.	199.0	53.0	240.0	0.0	.	72	.	.	Atlas-SNP
GALNT5	11227	hgsc.bcm.edu	hg19	2	158140942	158140942	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	GALNT5	NM_014568	exon2	c.G1603C	p.D535H	CTGGTAGATGACT	.	88.0	26.0	47.0	0.0	.	112	.	.	Atlas-SNP
FRZB	2487	hgsc.bcm.edu	hg19	2	183703315	183703315	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	FRZB	NM_001463	exon4	c.A619T	p.K207X	TAGTCTTTATCTC	.	106.0	33.0	71.0	0.0	.	42	.	.	Atlas-SNP
STK17B	9262	hgsc.bcm.edu	hg19	2	197010770	197010770	+	Silent	SNP	A	A	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	STK17B	NM_004226	exon4	c.T345G	p.G115G	TTCTCCACCTGCA	.	89.0	28.0	55.0	0.0	.	28	.	.	Atlas-SNP
EPHA4	2043	hgsc.bcm.edu	hg19	2	222290755	222290755	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	EPHA4	NM_004438	exon17	c.C2954A	p.P985H	CAGACGGGAACCA	.	94.0	24.0	91.0	0.0	.	263	.	.	Atlas-SNP
NCL	4691	hgsc.bcm.edu	hg19	2	232325441	232325441	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	NCL,NS,carcinoma,0,1	NCL	NM_005381	exon4	c.C750A	p.D250E	ATCTTCGTCGTCG	.	46.0	2.0	78.0	1.0	.	80	.	.	Atlas-SNP
C3orf20	84077	hgsc.bcm.edu	hg19	3	14755616	14755616	+	Silent	SNP	C	C	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	C3orf20	NM_032137	exon8	c.C1263T	p.A421A	GCTGGCCCTATTC	.	40.0	11.0	44.0	0.0	.	109	.	.	Atlas-SNP
UBP1	7342	hgsc.bcm.edu	hg19	3	33481287	33481287	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	UBP1	NM_001128160	exon1	c.C54G	p.D18E	GTCGAAGTCGTGC	.	214.0	72.0	190.0	0.0	.	42	.	.	Atlas-SNP
NBEAL2	23218	hgsc.bcm.edu	hg19	3	47049823	47049823	+	Silent	SNP	A	A	G	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	NBEAL2	NM_015175	exon51	c.A7770G	p.A2590A	AGCGGCACTACGG	.	63.0	18.0	113.0	0.0	.	267	.	.	Atlas-SNP
COL7A1	1294	hgsc.bcm.edu	hg19	3	48626421	48626421	+	Missense_Mutation	SNP	C	C	A	rs146407483	alternate_allele	TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	COL7A1	NM_000094	exon18	c.G2322T	p.E774D	CACAGGCTCAGGG	.	305.0	76.0	463.0	0.0	.	320	.	C|1.000;T|0.000	Atlas-SNP
CISH	1154	hgsc.bcm.edu	hg19	3	50645277	50645277	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	CISH	NM_013324	exon4	c.C589T	p.P197S	GGGTGGGAGCAGG	.	78.0	23.0	81.0	0.0	.	27	.	.	Atlas-SNP
EPHA3	2042	hgsc.bcm.edu	hg19	3	89390994	89390994	+	Silent	SNP	C	C	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	EPHA3	NM_005233	exon5	c.C1060A	p.R354R	GGAGGCCGGAAAG	.	182.0	56.0	129.0	0.0	.	501	.	.	Atlas-SNP
PHC3	80012	hgsc.bcm.edu	hg19	3	169840463	169840463	+	Silent	SNP	T	T	G	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	PHC3	NM_024947	exon9	c.A1858C	p.R620R	GGGTTCTATCCAT	.	135.0	26.0	93.0	0.0	.	113	.	.	Atlas-SNP
SLIT2	9353	hgsc.bcm.edu	hg19	4	20598095	20598095	+	Silent	SNP	T	T	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	SLIT2	NM_004787	exon32	c.T3378C	p.D1126D	CTGTGATAATTTT	.	106.0	10.0	101.0	0.0	.	290	.	.	Atlas-SNP
PTPN13	5783	hgsc.bcm.edu	hg19	4	87692453	87692453	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	PTPN13	NM_080685	exon31	c.T4948C	p.S1650P	TGCAAGTCCCCAT	.	264.0	75.0	239.0	0.0	.	203	.	.	Atlas-SNP
RPS3A	6189	hgsc.bcm.edu	hg19	4	152021639	152021639	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	RPS3A	NM_001006	exon2	c.T65C	p.V22A	CCAGGGTTGATCC	.	43.0	7.0	41.0	0.0	.	11	.	.	Atlas-SNP
FGA	2243	hgsc.bcm.edu	hg19	4	155507395	155507395	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	FGA	NM_000508	exon5	c.G1186A	p.D396N	GGCTATCTGGCCT	.	73.0	22.0	70.0	0.0	.	179	.	.	Atlas-SNP
IRX4	50805	hgsc.bcm.edu	hg19	5	1878257	1878257	+	Silent	SNP	G	G	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	IRX4	NM_016358	exon5	c.C1386T	p.G462G	GAGGGCGCCCTTG	.	57.0	16.0	73.0	0.0	.	45	.	.	Atlas-SNP
C5orf22	55322	hgsc.bcm.edu	hg19	5	31538643	31538643	+	Silent	SNP	A	A	G	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	C5orf22	NM_018356	exon4	c.A654G	p.P218P	AGAACCATCATGT	.	225.0	90.0	202.0	0.0	.	48	.	.	Atlas-SNP
NNT	23530	hgsc.bcm.edu	hg19	5	43644303	43644303	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	NNT	NM_182977	exon8	c.C974T	p.A325V	AAAAAGCTCCAGT	.	211.0	69.0	183.0	0.0	.	92	.	.	Atlas-SNP
SOWAHA	134548	hgsc.bcm.edu	hg19	5	132149934	132149934	+	Silent	SNP	A	A	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	.	NM_175873	exon1	c.A621T	p.A207A	CGGGGCAGCGAAA	.	35.0	14.0	47.0	0.0	.	.	.	.	Atlas-SNP
DIAPH1	1729	hgsc.bcm.edu	hg19	5	140915624	140915624	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	DIAPH1	NM_005219	exon18	c.A2479G	p.K827E	GCACTTTGGAAGG	.	376.0	131.0	506.0	1.0	.	64	.	.	Atlas-SNP
UBLCP1	134510	hgsc.bcm.edu	hg19	5	158697408	158697408	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	UBLCP1	NM_145049	exon4	c.T287G	p.V96G	ATGTTGTTAATGA	.	93.0	43.0	82.0	0.0	.	27	.	.	Atlas-SNP
HLA-DMA	3108	hgsc.bcm.edu	hg19	6	32917403	32917403	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	HLA-DMA	NM_006120	exon3	c.G637A	p.A213T	CAATTGCTGTGTA	.	218.0	43.0	138.0	0.0	.	20	.	.	Atlas-SNP
COL11A2	1302	hgsc.bcm.edu	hg19	6	33136316	33136316	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	COL11A2	NM_080680	exon54	c.C3940A	p.P1314T	GCCCTGGGGGTCC	.	128.0	22.0	103.0	0.0	.	124	.	.	Atlas-SNP
RUNX2	860	hgsc.bcm.edu	hg19	6	45390520	45390520	+	Silent	SNP	T	T	G	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	RUNX2	NM_001024630	exon3	c.T249G	p.A83A	GGCGGCTGCGGCG	.	125.0	5.0	35.0	0.0	.	128	.	.	Atlas-SNP
KIAA1586	57691	hgsc.bcm.edu	hg19	6	56917588	56917588	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	KIAA1586	NM_020931	exon4	c.C291A	p.H97Q	AAATCACTGCAGA	.	264.0	53.0	164.0	0.0	.	59	.	.	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	hg19	7	3998631	3998631	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	SDK1,NS,carcinoma,0,1	SDK1	NM_152744	exon8	c.G1219A	p.G407R	GACATCGGATGTC	.	81.0	30.0	88.0	0.0	.	361	.	.	Atlas-SNP
TNS3	64759	hgsc.bcm.edu	hg19	7	47343131	47343131	+	Silent	SNP	A	A	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	TNS3	NM_022748	exon22	c.T2874A	p.V958V	CAGGGAAACCATG	.	56.0	7.0	60.0	0.0	.	140	.	.	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	hg19	7	48412063	48412063	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	ABCA13	NM_152701	exon33	c.A11102G	p.N3701S	TACATAACCAATT	.	58.0	12.0	68.0	0.0	.	1192	.	.	Atlas-SNP
MAGI2	9863	hgsc.bcm.edu	hg19	7	77807384	77807384	+	Silent	SNP	T	T	G	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	MAGI2	NM_012301	exon14	c.A2347C	p.R783R	CCATCCTCCGAAG	.	95.0	22.0	65.0	0.0	.	246	.	.	Atlas-SNP
ACHE	43	hgsc.bcm.edu	hg19	7	100488791	100488791	+	Silent	SNP	G	G	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	ACHE	NM_000665	exon4	c.C1722T	p.T574T	CATACCGGTGGCG	.	146.0	6.0	184.0	0.0	.	80	.	.	Atlas-SNP
CTTNBP2	83992	hgsc.bcm.edu	hg19	7	117364621	117364621	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	CTTNBP2	NM_033427	exon19	c.A4427G	p.K1476R	TCTGGCTTATTCC	.	46.0	14.0	44.0	0.0	.	200	.	.	Atlas-SNP
LMOD2	442721	hgsc.bcm.edu	hg19	7	123302963	123302963	+	Silent	SNP	T	T	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	LMOD2_ENST00000458573,NS,carcinoma,0,1	LMOD2	NM_207163	exon2	c.T1323A	p.P441P	ACCACCTCCTCCT	.	95.0	4.0	75.0	1.0	.	62	.	.	Atlas-SNP
PODXL	5420	hgsc.bcm.edu	hg19	7	131241029	131241029	+	Silent	SNP	G	G	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	PODXL	NM_001018111	exon1	c.C90G	p.P30P	CTGGGAGGGCGAC	.	84.0	5.0	102.0	0.0	.	53	.	.	Atlas-SNP
TUSC3	7991	hgsc.bcm.edu	hg19	8	15601113	15601113	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	TUSC3	NM_178234	exon8	c.A929G	p.K310R	TTGGAAAAAGACG	.	45.0	4.0	69.0	0.0	.	98	.	.	Atlas-SNP
ZCCHC6	79670	hgsc.bcm.edu	hg19	9	88938154	88938154	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	ZCCHC6	NM_024617	exon13	c.G2511T	p.Q837H	TGATGTCTGGCCC	.	99.0	32.0	83.0	0.0	.	105	.	.	Atlas-SNP
BICD2	23299	hgsc.bcm.edu	hg19	9	95491346	95491346	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	BICD2	NM_001003800	exon2	c.A413G	p.E138G	TCATTCTCCGACT	.	48.0	11.0	47.0	0.0	.	68	.	.	Atlas-SNP
LRRC8A	56262	hgsc.bcm.edu	hg19	9	131670444	131670444	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	LRRC8A	NM_001127244	exon3	c.T1001A	p.L334H	ACGGCCTCATCTG	.	56.0	5.0	76.0	0.0	.	69	.	.	Atlas-SNP
CRAT	1384	hgsc.bcm.edu	hg19	9	131866547	131866547	+	Silent	SNP	G	G	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	CRAT	NM_000755	exon3	c.C330T	p.Y110Y	CTGGCGGTACTGG	.	198.0	54.0	262.0	0.0	.	43	.	.	Atlas-SNP
LHX3	8022	hgsc.bcm.edu	hg19	9	139089248	139089248	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	LHX3	NM_014564	exon6	c.G1132T	p.G378W	TGCTCCCCGTGGA	.	178.0	54.0	251.0	0.0	.	23	.	.	Atlas-SNP
SLC34A3	142680	hgsc.bcm.edu	hg19	9	140127035	140127035	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	SLC34A3	NM_001177317	exon4	c.G184A	p.V62M	CTCCGCGTGGCCG	.	48.0	5.0	62.0	0.0	.	32	.	.	Atlas-SNP
PRTFDC1	56952	hgsc.bcm.edu	hg19	10	25140374	25140374	+	Silent	SNP	T	T	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	PRTFDC1	NM_020200	exon8	c.A573G	p.P191P	TAAGTTTGGAATC	.	40.0	9.0	43.0	0.0	.	29	.	.	Atlas-SNP
HIPK3	10114	hgsc.bcm.edu	hg19	11	33350093	33350093	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	HIPK3	NM_001048200	exon3	c.G1135A	p.A379T	TGTGAAGCCATAG	.	52.0	18.0	64.0	0.0	.	92	.	.	Atlas-SNP
OR5D14	219436	hgsc.bcm.edu	hg19	11	55563748	55563748	+	Silent	SNP	C	C	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	OR5D14	NM_001004735	exon1	c.C717T	p.A239A	CAAAGCCTTCTCC	.	100.0	35.0	102.0	0.0	.	116	.	.	Atlas-SNP
OR5M10	390167	hgsc.bcm.edu	hg19	11	56344387	56344387	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	OR5M10	NM_001004741	exon1	c.T811A	p.S271T	TTTTGGACTCCTC	.	238.0	68.0	210.0	0.0	.	56	.	.	Atlas-SNP
NPAS4	266743	hgsc.bcm.edu	hg19	11	66188745	66188745	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	NPAS4	NM_178864	exon1	c.C95T	p.A32V	CCGAAGCGGACAA	.	191.0	69.0	245.0	0.0	.	133	.	.	Atlas-SNP
UBE4A	9354	hgsc.bcm.edu	hg19	11	118242363	118242363	+	Silent	SNP	C	C	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	UBE4A	NM_004788	exon5	c.C543T	p.F181F	CTGCTTCCAGAGA	.	35.0	9.0	52.0	0.0	.	97	.	.	Atlas-SNP
TIMELESS	8914	hgsc.bcm.edu	hg19	12	56817448	56817448	+	Silent	SNP	C	C	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	TIMELESS,NS,carcinoma,0,1	TIMELESS	NM_003920	exon17	c.G2010A	p.E670E	CTCCTCCTCTTCT	.	56.0	3.0	56.0	0.0	.	107	.	.	Atlas-SNP
ZMYM2	7750	hgsc.bcm.edu	hg19	13	20567236	20567236	+	Silent	SNP	A	A	G	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	ZMYM2	NM_001190964	exon4	c.A24G	p.G8G	GGGAGGATTAGAA	.	161.0	38.0	116.0	0.0	.	191	.	.	Atlas-SNP
RB1	5925	hgsc.bcm.edu	hg19	13	48923090	48923090	+	Splice_Site	SNP	A	A	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.,2	RB1	NM_000321	exon6	c.540-2A>T	.	TTTAATAGGATAT	.	33.0	19.0	40.0	0.0	.	1068	.	.	Atlas-SNP
PCDH17	27253	hgsc.bcm.edu	hg19	13	58208511	58208511	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	PCDH17,caecum,carcinoma,0,1	PCDH17	NM_001040429	exon1	c.C1831A	p.R611S	ACTGTGCGCGCCC	.	50.0	2.0	45.0	0.0	.	304	.	.	Atlas-SNP
NFATC4	4776	hgsc.bcm.edu	hg19	14	24845640	24845640	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	NFATC4	NM_001198967	exon10	c.G2386A	p.E796K	GCTTGCGAAACTC	.	67.0	20.0	86.0	0.0	.	115	.	.	Atlas-SNP
SEL1L	6400	hgsc.bcm.edu	hg19	14	82000074	82000074	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	SEL1L	NM_001244984	exon1	c.A15G	p.I5M	CAGCCCTATCCGG	.	106.0	36.0	104.0	0.0	.	67	.	.	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	hg19	14	105406860	105406860	+	Silent	SNP	G	G	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	AHNAK2	NM_138420	exon7	c.C14928T	p.D4976D	TTCTGGGTCCACC	.	97.0	27.0	144.0	0.0	.	719	.	.	Atlas-SNP
CHD9	80205	hgsc.bcm.edu	hg19	16	53338133	53338133	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	CHD9	NM_025134	exon31	c.T6215C	p.L2072P	GGACACTAATAAA	.	45.0	17.0	30.0	0.0	.	203	.	.	Atlas-SNP
TANGO6	79613	hgsc.bcm.edu	hg19	16	69056820	69056820	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	.	NM_024562	exon16	c.T2932G	p.L978V	AGCAGCTTGGCCA	.	47.0	17.0	90.0	0.0	.	.	.	.	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7576928	7576928	+	Splice_Site	SNP	T	T	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	TP53_ENST00000455263,NS,carcinoma,0,37	TP53	NM_000546	exon10	c.920-2A>G	.	CAGTGCTAGGAAA	.	81.0	40.0	195.0	0.0	.	33396	.	.	Atlas-SNP
KRT34	3885	hgsc.bcm.edu	hg19	17	39535325	39535325	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	KRT34	NM_021013	exon6	c.A1106T	p.E369V	CGGATCTCTGCCA	.	92.0	27.0	75.0	0.0	.	71	.	.	Atlas-SNP
HOXB2	3212	hgsc.bcm.edu	hg19	17	46620596	46620596	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	HOXB2	NM_002145	exon2	c.C905A	p.P302H	AGGAAAGGTGAAT	.	66.0	24.0	66.0	0.0	.	23	.	.	Atlas-SNP
GPR142	350383	hgsc.bcm.edu	hg19	17	72367914	72367914	+	Silent	SNP	C	C	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	GPR142	NM_181790	exon4	c.C564T	p.T188T	CAGGACCAGGAGG	.	37.0	14.0	62.0	0.0	.	74	.	.	Atlas-SNP
MEX3C	51320	hgsc.bcm.edu	hg19	18	48723154	48723154	+	Silent	SNP	G	G	C	rs62092914		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	MEX3C_ENST00000406189,NS,carcinoma,0,1	MEX3C	NM_016626	exon1	c.C537G	p.A179A	CGCCGCGGCCGCC	.	47.0	6.0	39.0	2.0	.	77	.	.	Atlas-SNP
CCDC151	115948	hgsc.bcm.edu	hg19	19	11532471	11532471	+	Silent	SNP	C	C	G	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	CCDC151	NM_145045	exon11	c.G1464C	p.L488L	GGGATCCAGCTCC	.	77.0	34.0	104.0	0.0	.	44	.	.	Atlas-SNP
FAM32A	26017	hgsc.bcm.edu	hg19	19	16296481	16296481	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	FAM32A	NM_014077	exon2	c.A121G	p.M41V	GAAGCAATGGGAA	.	159.0	43.0	231.0	0.0	.	6	.	.	Atlas-SNP
DPY19L3	147991	hgsc.bcm.edu	hg19	19	32968508	32968508	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	DPY19L3	NM_001172774	exon17	c.T1778A	p.L593Q	GGACCCTAACCAA	.	113.0	36.0	88.0	0.0	.	70	.	.	Atlas-SNP
LRFN1	57622	hgsc.bcm.edu	hg19	19	39805160	39805160	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	LRFN1	NM_020862	exon1	c.G817T	p.E273X	AGGTCTCTAAGTC	.	52.0	11.0	105.0	0.0	.	59	.	.	Atlas-SNP
CLC	1178	hgsc.bcm.edu	hg19	19	40225044	40225044	+	Missense_Mutation	SNP	C	C	T	rs140514392	bycluster;by1000genomes;alternate_allele	TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	CLC	NM_001828	exon3	c.G182A	p.R61H	ACCACACGACGAC	.	78.0	31.0	74.0	0.0	.	20	.	C|0.999;A|0.001	Atlas-SNP
ZNF229	7772	hgsc.bcm.edu	hg19	19	44934548	44934548	+	Silent	SNP	A	A	G	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	ZNF229	NM_014518	exon6	c.T408C	p.D136D	AGCAGCATCTTCT	.	80.0	24.0	66.0	0.0	.	123	.	.	Atlas-SNP
ZNF766	90321	hgsc.bcm.edu	hg19	19	52794386	52794386	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	ZNF766	NM_001010851	exon4	c.T1342G	p.F448V	AAGGTCTTTAGGC	.	125.0	39.0	118.0	0.0	.	45	.	.	Atlas-SNP
NLRP13	126204	hgsc.bcm.edu	hg19	19	56424387	56424387	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	NLRP13	NM_176810	exon5	c.T796G	p.F266V	GATAGAAAACATA	.	102.0	28.0	112.0	0.0	.	220	.	.	Atlas-SNP
ZNF582	147948	hgsc.bcm.edu	hg19	19	56895920	56895920	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	ZNF582	NM_144690	exon5	c.G866T	p.G289V	GCCTTGCCACATT	.	74.0	25.0	55.0	0.0	.	56	.	.	Atlas-SNP
SNX5	27131	hgsc.bcm.edu	hg19	20	17934754	17934754	+	Missense_Mutation	SNP	G	G	C	rs6045116	bycluster;alternate_allele	TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	SNX5	NM_014426	exon4	c.C275G	p.P92R	GGAGCAGGTGGAA	.	52.0	18.0	54.0	0.0	.	38	.	.	Atlas-SNP
CDH26	60437	hgsc.bcm.edu	hg19	20	58564168	58564168	+	Silent	SNP	T	T	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	CDH26	NM_177980	exon9	c.T1233C	p.P411P	CAGGCCTGGGACC	.	104.0	36.0	89.0	0.0	.	229	.	.	Atlas-SNP
ITGB1BP2	26548	hgsc.bcm.edu	hg19	X	70524435	70524435	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	ITGB1BP2	NM_012278	exon10	c.C797A	p.A266E	TCCAAGCACAGAT	.	37.0	11.0	41.0	0.0	.	35	.	.	Atlas-SNP
CDX4	1046	hgsc.bcm.edu	hg19	X	72667261	72667261	+	Missense_Mutation	SNP	C	C	A	rs373883804	alternate_allele	TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	CDX4	NM_005193	exon1	c.C172A	p.H58N	TATCCTCATATGC	.	123.0	34.0	117.0	0.0	.	52	.	.	Atlas-SNP
USP26	83844	hgsc.bcm.edu	hg19	X	132160217	132160217	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	USP26	NM_031907	exon1	c.A2032T	p.S678C	GGCTGCTGGCAGG	.	91.0	30.0	77.0	0.0	.	135	.	.	Atlas-SNP
SLITRK4	139065	hgsc.bcm.edu	hg19	X	142717487	142717487	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	SLITRK4	NM_001184750	exon2	c.T1438G	p.L480V	TGTTTAAGTACAG	.	226.0	59.0	175.0	0.0	.	162	.	.	Atlas-SNP
AVPR2	554	hgsc.bcm.edu	hg19	X	153171245	153171245	+	Silent	SNP	C	C	T	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	AVPR2	NM_001146151	exon2	c.C285T	p.P95P	GCTGCCCCAGCTG	.	96.0	37.0	127.0	0.0	.	43	.	.	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	12345	12345	+	Silent	SNP	G	G	A	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	.	ENST00000361567	exon1	c.G9A	p.M3M	AACCATGCACACT	.	82.0	28.0	8.0	0.0	.	.	.	.	Atlas-SNP
CYTB	0	hgsc.bcm.edu	hg19	MT	15648	15648	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	.	ENST00000361789	exon1	c.T902C	p.L301P	TCATCCTAGCAAT	.	78.0	10.0	11.0	0.0	.	.	.	.	Atlas-SNP
UBXN11	91544	hgsc.bcm.edu	hg19	1	26608874	26608879	+	In_Frame_Del	DEL	GGGGCC	GGGGCC	-	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	GGGGCC	GGGGCC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	UBXN11,NS,carcinoma,0,1	UBXN11	NM_183008	exon16	c.1475_1480del	p.492_494del	.	.	27.0	10.0	33.0	0.0	.	54	.	.	Atlas-INDEL
PZP	5858	hgsc.bcm.edu	hg19	12	9345225	9345240	+	Frame_Shift_Del	DEL	AATGTAACTTCCACTT	AATGTAACTTCCACTT	-	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	AATGTAACTTCCACTT	AATGTAACTTCCACTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	PZP	NM_002864	exon12	c.1351_1366del	p.451_456del	.	.	85.0	20.0	76.0	0.0	.	422	.	.	Atlas-INDEL
SCP2	6342	hgsc.bcm.edu	hg19	1	53443897	53443897	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	SCP2	NM_002979	exon9	c.682delT	p.S228fs	.	.	57.0	22.0	58.0	0.0	.	44	.	.	Atlas-INDEL
RAPGEF2	9693	hgsc.bcm.edu	hg19	4	160259466	160259467	+	Frame_Shift_Ins	INS	-	-	ATTG	novel		TCGA-WX-AA44-01A-11D-A38X-10	TCGA-WX-AA44-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	398106b4-bf09-4e9f-aeb5-3a8a1abdf3a0	126b3540-5f43-46f5-b374-f13a3d006e05	.	RAPGEF2	NM_014247	exon12	c.1656_1657insATTG	p.D552fs	.	.	137.0	31.0	107.0	0.0	.	171	.	.	Atlas-INDEL