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	TVarRat	NVarRat	dbSNP_Strength	dbSNP_AF	dbSNP_PopFreq	Confidence	Algorithm
CAMTA1	23261	hgsc.bcm.edu	hg19	1	7811258	7811258	+	Splice_Site	SNP	G	G	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	CAMTA1	NM_015215	exon20	c.4690-1G>T	.	CCTGCAGTACGCA	.	92.0	6.0	99.0	0.0	.	226	.	.	.	none	.	.	PASS	Atlas-SNP
MFN2	9927	hgsc.bcm.edu	hg19	1	12067262	12067262	+	Silent	SNP	T	T	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	MFN2	NM_014874	exon17	c.T2025A	p.L675L	GCAGCTTGTCATC	.	139.0	57.0	177.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
TNFRSF1B	7133	hgsc.bcm.edu	hg19	1	12254074	12254074	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	TNFRSF1B	NM_001066	exon7	c.A850C	p.M284L	GTCATCATGACCC	.	92.0	42.0	130.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	hg19	1	19430633	19430633	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	UBR4	NM_020765	exon87	c.G12846T	p.K4282N	GATCAGCTTGGTC	.	121.0	68.0	98.0	0.0	.	415	.	.	.	none	.	.	PASS	Atlas-SNP
PUM1	9698	hgsc.bcm.edu	hg19	1	31452956	31452956	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	PUM1	NM_014676	exon9	c.C1307A	p.P436Q	GTCCCTGGGGGAG	.	71.0	26.0	79.0	0.0	.	107	.	.	.	none	.	.	PASS	Atlas-SNP
WDR65	149465	hgsc.bcm.edu	hg19	1	43681027	43681027	+	Silent	SNP	A	A	G	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	WDR65	NM_001195831	exon12	c.A2031G	p.R677R	CAAGCGAGAGAGG	.	131.0	66.0	110.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
C8A	731	hgsc.bcm.edu	hg19	1	57383327	57383327	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	C8A	NM_000562	exon11	c.C1693T	p.P565S	GACAATCCAGCAC	.	260.0	125.0	253.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
HAPLN2	60484	hgsc.bcm.edu	hg19	1	156594250	156594250	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	HAPLN2	NM_021817	exon5	c.C547G	p.L183V	TCCCAGCTCTACC	.	145.0	56.0	201.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
ATP1A2	477	hgsc.bcm.edu	hg19	1	160104412	160104412	+	Splice_Site	SNP	T	T	G	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	ATP1A2	NM_000702	exon14	c.1964+2T>G	.	CCCAGGTGAGGCC	.	111.0	53.0	90.0	0.0	.	167	.	.	.	none	.	.	PASS	Atlas-SNP
NEK2	4751	hgsc.bcm.edu	hg19	1	211846908	211846908	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	NEK2	NM_002497	exon3	c.G472T	p.G158X	AGTCTCCAAGCTT	.	92.0	33.0	117.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM63A	9725	hgsc.bcm.edu	hg19	1	226040425	226040425	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	TMEM63A	NM_014698	exon20	c.C1843T	p.L615L	CACACAGCATCCA	.	85.0	47.0	67.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
ROCK2	9475	hgsc.bcm.edu	hg19	2	11333932	11333932	+	Silent	SNP	A	A	G	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	ROCK2	NM_004850	exon30	c.T3660C	p.D1220D	TTTAGCATCTGCT	.	54.0	27.0	51.0	0.0	.	224	.	.	.	none	.	.	PASS	Atlas-SNP
EPAS1	2034	hgsc.bcm.edu	hg19	2	46583908	46583908	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	EPAS1,caecum,carcinoma,0,1	EPAS1	NM_001430	exon4	c.G415A	p.D139N	CCCTGCGACCATG	.	64.0	27.0	60.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
ADD2	119	hgsc.bcm.edu	hg19	2	70931525	70931525	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	ADD2	NM_001185055	exon3	c.A298G	p.I100V	CCCAGATGTTGGA	.	52.0	16.0	65.0	0.0	.	261	.	.	.	none	.	.	PASS	Atlas-SNP
ANKRD23	200539	hgsc.bcm.edu	hg19	2	97505808	97505808	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	ANKRD23	NM_144994	exon7	c.G649T	p.A217S	GCACTGCCACGTG	.	30.0	16.0	58.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
MYO7B	4648	hgsc.bcm.edu	hg19	2	128341726	128341726	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	MYO7B	NM_001080527	exon13	c.A1373G	p.N458S	TCGCCAACGAGCA	.	94.0	45.0	78.0	0.0	.	359	.	.	.	none	.	.	PASS	Atlas-SNP
GPR155	151556	hgsc.bcm.edu	hg19	2	175346273	175346273	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	GPR155	NM_001267051	exon2	c.C412T	p.P138S	AAATAGGGAATAG	.	105.0	52.0	115.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
USP37	57695	hgsc.bcm.edu	hg19	2	219360546	219360546	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	USP37	NM_020935	exon14	c.C1409A	p.A470E	GTGTATGCTCTGG	.	106.0	49.0	73.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
COL4A3	1285	hgsc.bcm.edu	hg19	2	228174025	228174025	+	Silent	SNP	A	A	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	COL4A3	NM_000091	exon50	c.A4746T	p.S1582S	ATTTTCATTCATC	.	45.0	23.0	61.0	0.0	.	293	.	.	.	none	.	.	PASS	Atlas-SNP
ARMC9	80210	hgsc.bcm.edu	hg19	2	232141353	232141353	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	ARMC9	NM_025139	exon15	c.C1339A	p.P447T	AGGCGCCCGCTGC	.	46.0	25.0	46.0	0.0	.	129	.	.	.	none	.	.	PASS	Atlas-SNP
UGT1A6	54578	hgsc.bcm.edu	hg19	2	234602011	234602011	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	UGT1A6	NM_001072	exon1	c.C361A	p.L121M	ATTGGCCTGTACT	.	73.0	25.0	56.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
ANO7	50636	hgsc.bcm.edu	hg19	2	242149796	242149796	+	Silent	SNP	T	T	G	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	ANO7	NM_001001891	exon14	c.T1608G	p.L536L	CACCCTTCTCGCA	.	52.0	19.0	64.0	0.0	.	136	.	.	.	none	.	.	PASS	Atlas-SNP
XYLB	9942	hgsc.bcm.edu	hg19	3	38404498	38404498	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	XYLB	NM_005108	exon4	c.G281A	p.G94E	TGTCCGGGGCGGG	.	38.0	36.0	50.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
BAP1	8314	hgsc.bcm.edu	hg19	3	52439781	52439781	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	BAP1	NM_004656	exon10	c.G931T	p.D311Y	CAGTACCTGTGTG	.	60.0	53.0	72.0	0.0	.	371	.	.	.	none	.	.	PASS	Atlas-SNP
SPON2	10417	hgsc.bcm.edu	hg19	4	1165761	1165761	+	Silent	SNP	G	G	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	SPON2	NM_012445	exon2	c.C99A	p.S33S	ACAGATGGACTCT	.	146.0	59.0	235.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
C4orf21	55345	hgsc.bcm.edu	hg19	4	113539801	113539801	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	C4orf21_ENST00000505019,NS,carcinoma,0,1	C4orf21	NM_018392	exon6	c.G1397T	p.G466V	AGTGTTCCACATG	.	67.0	27.0	66.0	0.0	.	223	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA0922	23240	hgsc.bcm.edu	hg19	4	154517528	154517528	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	KIAA0922	NM_001131007	exon20	c.T2114C	p.I705T	CACTCATACTAAT	.	59.0	24.0	39.0	0.0	.	214	.	.	.	none	.	.	PASS	Atlas-SNP
CMBL	134147	hgsc.bcm.edu	hg19	5	10282333	10282333	+	Missense_Mutation	SNP	A	A	T	rs115129340	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	CMBL	NM_138809	exon5	c.T534A	p.N178K	AACATCATTTTCA	.	201.0	71.0	253.0	0.0	.	24	.	.	.	alt	A|0.990;G|0.010	.	PASS	Atlas-SNP
DDX46	9879	hgsc.bcm.edu	hg19	5	134118720	134118720	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	DDX46	NM_014829	exon9	c.T1131A	p.C377X	CCAGTGTGGAATT	.	150.0	65.0	145.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHGA1	56114	hgsc.bcm.edu	hg19	5	140712543	140712543	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	PCDHGA1	NM_018912	exon1	c.G2292A	p.R764R	CTCGCGGAAGAGC	.	207.0	59.0	283.0	0.0	.	397	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHGB4	8641	hgsc.bcm.edu	hg19	5	140769788	140769788	+	Silent	SNP	C	C	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	PCDHGB4	NM_032098	exon1	c.C2337T	p.C779C	ACTTTGCGGTGAT	.	112.0	27.0	177.0	0.0	.	125	.	.	.	none	.	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	hg19	5	150920245	150920245	+	Silent	SNP	G	G	A	rs111242057	bycluster	TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	FAT2	NM_001447	exon10	c.C8922T	p.R2974R	ATGCTCGCGGTCC	.	74.0	32.0	82.0	0.0	.	465	.	.	.	weak	G|0.500;A|0.500	0.500	PASS	Atlas-SNP
DAAM2	23500	hgsc.bcm.edu	hg19	6	39869623	39869623	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	DAAM2	NM_001201427	exon25	c.G3017T	p.R1006L	GGCAGCGGCAGCG	.	37.0	20.0	19.0	0.0	.	101	.	.	.	none	.	.	PASS	Atlas-SNP
SMPDL3A	10924	hgsc.bcm.edu	hg19	6	123116945	123116945	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	SMPDL3A	NM_006714	exon2	c.T236C	p.V79A	GAGATGTTCTGTG	.	65.0	31.0	88.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
FAM20C	56975	hgsc.bcm.edu	hg19	7	288293	288293	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	FAM20C	NM_020223	exon5	c.C969A	p.F323L	GGACTTCCGCCGG	.	1126.0	524.0	921.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
SEMA3E	9723	hgsc.bcm.edu	hg19	7	82997040	82997040	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	SEMA3E	NM_012431	exon17	c.G2190C	p.E730D	TACTTTCTCGCAG	.	226.0	111.0	118.0	0.0	.	125	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC71L	168455	hgsc.bcm.edu	hg19	7	106301196	106301196	+	Silent	SNP	C	C	G	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	CCDC71L	NM_175884	exon1	c.G147C	p.L49L	GTCAGCCAGCGAC	.	127.0	73.0	103.0	0.0	.	2	.	.	.	none	.	.	PASS	Atlas-SNP
OMD	4958	hgsc.bcm.edu	hg19	9	95179162	95179162	+	Missense_Mutation	SNP	T	T	C	rs376323161		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	OMD	NM_005014	exon2	c.A679G	p.M227V	GAGGCATTGATTC	.	88.0	37.0	66.0	0.0	.	42	.	.	.	weak	.	.	PASS	Atlas-SNP
GRIN3A	116443	hgsc.bcm.edu	hg19	9	104433388	104433388	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	GRIN3A	NM_133445	exon3	c.T1306A	p.F436I	CTAGAAACCTGGG	.	93.0	43.0	62.0	0.0	.	186	.	.	.	none	.	.	PASS	Atlas-SNP
FBXW2	26190	hgsc.bcm.edu	hg19	9	123533652	123533652	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	FBXW2	NM_012164	exon7	c.G1050C	p.W350C	AAAGTCCCACTGG	.	82.0	29.0	68.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF79	7633	hgsc.bcm.edu	hg19	9	130197411	130197411	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	ZNF79	NM_007135	exon3	c.G148A	p.E50K	GCACAGGAAAGGT	.	141.0	59.0	129.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1462	57608	hgsc.bcm.edu	hg19	10	30315194	30315194	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	KIAA1462	NM_020848	exon3	c.C3883T	p.Q1295X	CGGCCTGGCCCCT	.	37.0	17.0	38.0	0.0	.	162	.	.	.	none	.	.	PASS	Atlas-SNP
C10orf10	11067	hgsc.bcm.edu	hg19	10	45473410	45473410	+	Silent	SNP	C	C	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	C10orf10	NM_007021	exon2	c.G69T	p.L23L	CCCAAGCAGCATC	.	88.0	42.0	98.0	0.0	.	6	.	.	.	none	.	.	PASS	Atlas-SNP
TIMM23	100287932	hgsc.bcm.edu	hg19	10	51623127	51623127	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	TIMM23	NM_006327	exon1	c.G88A	p.D30N	CCAAATCCGCGTG	.	656.0	126.0	617.0	1.0	.	4	.	.	.	none	.	.	PASS	Atlas-SNP
RAG1	5896	hgsc.bcm.edu	hg19	11	36596889	36596889	+	Missense_Mutation	SNP	A	A	C	rs143227621	bycluster;by1000genomes;alternate_allele	TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	RAG1	NM_000448	exon2	c.A2035C	p.I679L	CCTCTCATTGCTG	.	72.0	32.0	51.0	0.0	.	151	.	.	.	alt	A|1.000;G|0.000	.	PASS	Atlas-SNP
SSRP1	6749	hgsc.bcm.edu	hg19	11	57102553	57102553	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	SSRP1	NM_003146	exon2	c.A43T	p.K15X	AACCTTTCACCTC	.	64.0	28.0	87.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
DAK	26007	hgsc.bcm.edu	hg19	11	61111630	61111630	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	DAK	NM_015533	exon13	c.G1125A	p.A375A	GATGGCGCTGGTG	.	82.0	37.0	73.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
FAM86C1	55199	hgsc.bcm.edu	hg19	11	71504494	71504494	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	FAM86C1	NM_018172	exon3	c.G228T	p.K76N	GGCCAAGGAGTCC	.	136.0	67.0	164.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
PATE1	160065	hgsc.bcm.edu	hg19	11	125618623	125618623	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	PATE1	NM_138294	exon5	c.C376T	p.L126F	GAAGACCTTTAGA	.	71.0	24.0	78.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
TAS2R19	259294	hgsc.bcm.edu	hg19	12	11174899	11174899	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	TAS2R19	NM_176888	exon1	c.C272T	p.T91M	TGGTTCGTTACAG	.	120.0	44.0	123.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
GPR133	283383	hgsc.bcm.edu	hg19	12	131466438	131466438	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	GPR133	NM_198827	exon5	c.T320C	p.F107S	TCACGTTTTCTTT	.	105.0	44.0	113.0	0.0	.	136	.	.	.	none	.	.	PASS	Atlas-SNP
PROX2	283571	hgsc.bcm.edu	hg19	14	75321933	75321933	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	PROX2	NM_001243007	exon4	c.G1681T	p.D561Y	CTGAGTCTCTCCC	.	62.0	32.0	79.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
ANGEL1	23357	hgsc.bcm.edu	hg19	14	77275538	77275538	+	Silent	SNP	T	T	C	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	ANGEL1	NM_015305	exon2	c.A513G	p.T171T	CTGCTCTGTGGCC	.	72.0	27.0	64.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
MYO1E	4643	hgsc.bcm.edu	hg19	15	59466345	59466345	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	MYO1E	NM_004998	exon20	c.A2144G	p.Y715C	TGAACGTATTTCT	.	78.0	32.0	62.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
ATF7IP2	80063	hgsc.bcm.edu	hg19	16	10525251	10525251	+	Silent	SNP	T	T	C	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	ATF7IP2	NM_024997	exon3	c.T774C	p.S258S	AACCAGTATTTCA	.	181.0	73.0	194.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
TXNDC11	51061	hgsc.bcm.edu	hg19	16	11782282	11782282	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	TXNDC11	NM_015914	exon9	c.C1920A	p.F640L	AACGCTGAAGTTT	.	65.0	26.0	47.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
MKL2	57496	hgsc.bcm.edu	hg19	16	14355241	14355241	+	Silent	SNP	G	G	A	rs150140535		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	MKL2	NM_014048	exon17	c.G3090A	p.A1030A	CACCGCGCCGAGC	.	78.0	41.0	79.0	0.0	.	103	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
KIAA0430	9665	hgsc.bcm.edu	hg19	16	15702262	15702262	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	KIAA0430	NM_014647	exon21	c.G4068A	p.M1356I	TGTCATCATAAGG	.	155.0	70.0	130.0	0.0	.	154	.	.	.	none	.	.	PASS	Atlas-SNP
MAZ	4150	hgsc.bcm.edu	hg19	16	29820995	29820995	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	MAZ	NM_001042539	exon5	c.C1414T	p.Q472X	CACATGCAGACCC	.	65.0	29.0	102.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
ITGAE	3682	hgsc.bcm.edu	hg19	17	3638168	3638168	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	ITGAE	NM_002208	exon21	c.C2598A	p.Y866X	TGTCATGTAGGAA	.	145.0	43.0	103.0	0.0	.	96	.	.	.	none	.	.	PASS	Atlas-SNP
CAMTA2	23125	hgsc.bcm.edu	hg19	17	4883018	4883018	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	CAMTA2,NS,carcinoma,0,1	CAMTA2	NM_001171167	exon9	c.C1668A	p.S556R	GATGGTGCTAAGA	.	89.0	23.0	61.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
PER1	5187	hgsc.bcm.edu	hg19	17	8053954	8053954	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	PER1,colon,carcinoma,0,1	PER1	NM_002616	exon2	c.G71T	p.G24V	GGGACGCCCCCAG	.	39.0	18.0	35.0	0.0	.	104	.	.	.	none	.	.	PASS	Atlas-SNP
NCOR1	9611	hgsc.bcm.edu	hg19	17	15952256	15952256	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	NCOR1	NM_006311	exon41	c.T6439A	p.Y2147N	GCTCGTAGGGCTC	.	137.0	83.0	82.0	0.0	.	240	.	.	.	none	.	.	PASS	Atlas-SNP
IFI35	3430	hgsc.bcm.edu	hg19	17	41166305	41166305	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	IFI35	NM_005533	exon7	c.G856A	p.E286K	ACCTCTGAGTCAG	.	79.0	17.0	58.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
NFKBID	84807	hgsc.bcm.edu	hg19	19	36387912	36387912	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	NFKBID	NM_139239	exon5	c.C55T	p.P19S	CAGCGGGGAACTG	.	184.0	80.0	221.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
ZC3H4	23211	hgsc.bcm.edu	hg19	19	47570155	47570155	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	ZC3H4,NS,carcinoma,0,1	ZC3H4	NM_015168	exon15	c.C3370A	p.R1124S	GCACGCGGGGGTC	.	34.0	2.0	38.0	0.0	.	96	.	.	.	none	.	.	PASS	Atlas-SNP
PEG3	5178	hgsc.bcm.edu	hg19	19	57328814	57328814	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	PEG3	NM_001146184	exon9	c.G996T	p.R332S	TGACTCCCTTGCT	.	103.0	47.0	85.0	0.0	.	414	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF776	284309	hgsc.bcm.edu	hg19	19	58265364	58265364	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	ZNF776	NM_173632	exon3	c.A866G	p.E289G	CTGGAGAAAGACC	.	47.0	26.0	52.0	0.0	.	115	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF217	7764	hgsc.bcm.edu	hg19	20	52194908	52194908	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	ZNF217	NM_006526	exon2	c.A1448G	p.N483S	TAATAATTTGAAC	.	407.0	197.0	512.0	0.0	.	227	.	.	.	none	.	.	PASS	Atlas-SNP
USP25	29761	hgsc.bcm.edu	hg19	21	17135271	17135271	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	USP25	NM_013396	exon2	c.T107A	p.L36Q	AGATACTACAGCA	.	67.0	40.0	46.0	0.0	.	156	.	.	.	none	.	.	PASS	Atlas-SNP
CLIC6	54102	hgsc.bcm.edu	hg19	21	36042470	36042470	+	Silent	SNP	A	A	G	rs62213790		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	CLIC6,NS,carcinoma,0,1	CLIC6	NM_053277	exon1	c.A783G	p.E261E	CGTAGAAGCGGGG	.	14.0	4.0	23.0	0.0	.	49	.	.	.	weak	.	.	PASS	Atlas-SNP
KRTAP10-8	386681	hgsc.bcm.edu	hg19	21	46032738	46032738	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	KRTAP10-8	NM_198695	exon1	c.C721T	p.H241Y	TGCTGCCACCCGG	.	37.0	20.0	59.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
FANCB	2187	hgsc.bcm.edu	hg19	X	14863248	14863248	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	FANCB	NM_152633	exon7	c.A1657C	p.T553P	TCAACGTGACCCT	.	141.0	124.0	130.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
LPAR4	2846	hgsc.bcm.edu	hg19	X	78010830	78010830	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	LPAR4	NM_005296	exon2	c.C464G	p.S155C	GGAATTCTGCCAT	.	50.0	47.0	28.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
NASP	4678	hgsc.bcm.edu	hg19	1	46073205	46073206	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	NASP	NM_002482	exon6	c.622_623insA	p.E208fs	.	.	210.0	104.0	207.0	0.0	.	77	.	0.495238	0	none	.	.	PASS	Atlas-Indel,Pindel
CCDC146	57639	hgsc.bcm.edu	hg19	7	76885742	76885744	+	In_Frame_Del	DEL	AGA	AGA	-	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	CCDC146	NM_020879	exon6	c.599_601del	p.200_201del	.	.	398.0	83.0	195.0	0.0	.	87	.	0.208543	0	none	.	.	PASS	Atlas-Indel,Pindel
KRT2	3849	hgsc.bcm.edu	hg19	12	53045631	53045632	+	In_Frame_Ins	INS	-	-	CGCCTCCAAAGCCGCTGC	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	KRT2	NM_000423	exon1	c.296_297insGCAGCGGCTTTGGAGGCG	p.G99delinsGSGFGGG	.	.	171.0	32.0	146.0	0.0	.	94	.	0.187135	0	none	.	.	PASS	Atlas-INDEL
GRINA	2907	hgsc.bcm.edu	hg19	8	145066228	145066230	+	In_Frame_Del	DEL	CTG	CTG	-	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	CTG	CTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	GRINA	NM_001009184	exon4	c.674_676del	p.225_226del	.	.	66.0	29.0	62.0	0.0	.	25	.	0.439394	0	none	.	.	PASS	Atlas-Indel,Pindel
INTS10	55174	hgsc.bcm.edu	hg19	8	19680900	19680901	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	INTS10	NM_018142	exon6	c.612_613insT	p.E204fs	.	.	75.0	27.0	104.0	0.0	.	46	.	0.36	0	none	.	.	PASS	Atlas-Indel,Pindel
CELF1	10658	hgsc.bcm.edu	hg19	11	47498949	47498950	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	CELF1	NM_001172639	exon11	c.870_871insT	p.L290fs	.	.	46.0	15.0	50.0	0.0	.	43	.	0.326087	0	none	.	.	PASS	Atlas-Indel,Pindel
BACH1	571	hgsc.bcm.edu	hg19	21	30699093	30699114	+	Frame_Shift_Del	DEL	CCCTCATGGACTTTATTCTTTG	CCCTCATGGACTTTATTCTTTG	-	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	CCCTCATGGACTTTATTCTTTG	CCCTCATGGACTTTATTCTTTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	BACH1	NM_206866	exon3	c.947_968del	p.316_323del	.	.	49.0	19.0	60.0	0.0	.	66	.	0.387755	0	none	.	.	PASS	Atlas-Indel,Pindel
REPS1	85021	hgsc.bcm.edu	hg19	6	139262521	139262521	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	REPS1	NM_001128617	exon8	c.1087delC	p.L363fs	.	.	91.0	39.0	99.0	0.0	.	58	.	0.428571	0	none	.	.	PASS	Atlas-Indel,Pindel
TTC4	7268	hgsc.bcm.edu	hg19	1	55197174	55197174	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	TTC4	NM_004623	exon7	c.696delG	p.R232fs	.	.	56.0	23.0	51.0	0.0	.	21	.	0.410714	0	none	.	.	PASS	Atlas-Indel,Pindel
KCNS3	3790	hgsc.bcm.edu	hg19	2	18112835	18112835	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	KCNS3,NS,carcinoma,0,1	KCNS3	NM_002252	exon3	c.559delA	p.I187fs	.	.	117.0	49.0	93.0	0.0	.	85	.	0.418803	0	none	.	.	PASS	Atlas-Indel,Pindel
PPYR1	5540	hgsc.bcm.edu	hg19	10	47086821	47086842	+	Frame_Shift_Del	DEL	AATCTCCACAAGGTGAAAACAG	AATCTCCACAAGGTGAAAACAG	-	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	AATCTCCACAAGGTGAAAACAG	AATCTCCACAAGGTGAAAACAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	PPYR1	NM_005972	exon3	c.37_58del	p.13_20del	.	.	228.0	27.0	225.0	0.0	.	54	.	0.118421	0	none	.	.	PASS	Atlas-Indel,Pindel
UNC5C	8633	hgsc.bcm.edu	hg19	4	96140151	96140151	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	UNC5C	NM_003728	exon9	c.1615delC	p.L539fs	.	.	54.0	25.0	43.0	0.0	.	141	.	0.462963	0	none	.	.	PASS	Atlas-Indel,Pindel
MFN2	9927	hgsc.bcm.edu	hg19	1	12067259	12067260	+	Frame_Shift_Del	DEL	GC	GC	-	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	MFN2	NM_014874	exon17	c.2021_2022del	p.674_674del	.	.	138.0	57.0	171.0	0.0	.	83	.	0.413043	0	none	.	.	PASS	Atlas-INDEL
CMTM3	123920	hgsc.bcm.edu	hg19	16	66643431	66643431	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	CMTM3	NM_181553	exon3	c.396delT	p.A132fs	.	.	25.0	11.0	54.0	0.0	.	13	.	0.44	0	none	.	.	PASS	Atlas-INDEL
ADARB2	105	hgsc.bcm.edu	hg19	10	1279742	1279743	+	Frame_Shift_Del	DEL	TT	TT	-	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	ADARB2	NM_018702	exon6	c.1407_1408del	p.469_470del	.	.	99.0	45.0	104.0	0.0	.	95	.	0.454545	0	none	.	.	PASS	Atlas-Indel,Pindel
USP42	84132	hgsc.bcm.edu	hg19	7	6180604	6180605	+	Frame_Shift_Ins	INS	-	-	TA	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	USP42	NM_032172	exon7	c.784_785insTA	p.L262fs	.	.	990.0	431.0	634.0	0.0	.	138	.	0.435354	0	none	.	.	PASS	Atlas-Indel,Pindel
MFN2	9927	hgsc.bcm.edu	hg19	1	12067259	12067262	+	Frame_Shift_Del	DEL	GCTT	GCTT	-	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	GCTT	GCTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	MFN2	NM_014874	exon17	c.2021_2024del	p.674_675del	.	.	142.0	40.0	175.0	0.0	.	83	.	0.282	.	none	.	.	PASS	Pindel
KIAA2018	205717	hgsc.bcm.edu	hg19	3	113392215	113392215	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	KIAA2018	NM_001009899	exon4	c.57delC	p.N19fs	.	.	393.0	139.0	388.0	0.0	.	180	.	0.354	.	none	.	.	PASS	Pindel
ITPR1	3708	hgsc.bcm.edu	hg19	3	4821261	4821263	+	In_Frame_Del	DEL	ATC	ATC	-	novel		TCGA-2Z-A9JE-01A-11D-A42J-10	TCGA-2Z-A9JE-10A-01D-A42M-10	ATC	ATC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	fa7ded84-a75d-4ee6-b8c4-cb4858ba6c62	0ce30bd0-7241-4ecb-aa30-df5138e4b738	.	ITPR1	NM_001168272	exon48	c.6273_6275del	p.2091_2092del	.	.	152.0	88.0	160.0	0.0	.	659	.	0.579	.	none	.	.	PASS	Pindel