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
MACF1	23499	hgsc.bcm.edu	hg19	1	39907974	39907974	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	MACF1	NM_012090	exon73	c.G12753T	p.E4251D	GGGTGAGAAAATT	.	123.0	39.0	128.0	0.0	.	909	.	.	Atlas-SNP
STXBP3	6814	hgsc.bcm.edu	hg19	1	109339272	109339272	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	STXBP3	NM_007269	exon15	c.T1280A	p.I427N	GGTTGATCCAGAA	.	208.0	62.0	230.0	0.0	.	44	.	.	Atlas-SNP
KPRP	448834	hgsc.bcm.edu	hg19	1	152732812	152732812	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	KPRP	NM_001025231	exon2	c.C748T	p.R250W	CGCTCTCGGAGCA	.	82.0	26.0	58.0	0.0	.	152	.	.	Atlas-SNP
CD1E	913	hgsc.bcm.edu	hg19	1	158325699	158325699	+	Silent	SNP	C	C	T	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	CD1E	NM_001042584	exon4	c.C708T	p.Y236Y	ATTCTACCCAAAG	.	320.0	14.0	273.0	0.0	.	129	.	.	Atlas-SNP
ABCG5	64240	hgsc.bcm.edu	hg19	2	44053584	44053584	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	ABCG5	NM_022436	exon6	c.A711C	p.E237D	AGCCAGTTCCACC	.	184.0	61.0	150.0	0.0	.	72	.	.	Atlas-SNP
CHRNA1	1134	hgsc.bcm.edu	hg19	2	175624066	175624066	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	CHRNA1	NM_001039523	exon3	c.T227A	p.L76Q	TGTTTCAGACGCA	.	247.0	78.0	216.0	0.0	.	92	.	.	Atlas-SNP
IDH1	3417	hgsc.bcm.edu	hg19	2	209113113	209113113	+	Missense_Mutation	SNP	G	G	A	rs121913499	bycluster	TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	IDH1,NS,haematopoietic_neoplasm,0,788	IDH1	NM_005896	exon4	c.C394T	p.R132C	CATGACGACCTAT	.	294.0	87.0	267.0	0.0	.	6310	.	.	Atlas-SNP
TMPRSS7	344805	hgsc.bcm.edu	hg19	3	111797619	111797619	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	TMPRSS7	NM_001042575	exon15	c.C1877T	p.A626V	AGCAAGCGGAGGT	.	231.0	64.0	218.0	0.0	.	126	.	.	Atlas-SNP
SEMA5B	54437	hgsc.bcm.edu	hg19	3	122629075	122629075	+	Missense_Mutation	SNP	G	G	A	rs369693926		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	SEMA5B	NM_001256347	exon23	c.C3533T	p.T1178M	GTAGTCGTGTACA	.	705.0	231.0	620.0	0.0	.	303	.	.	Atlas-SNP
ZNF518B	85460	hgsc.bcm.edu	hg19	4	10446101	10446101	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	ZNF518B	NM_053042	exon3	c.T1852A	p.L618I	TCTTTAATTCCAA	.	293.0	77.0	403.0	1.0	.	116	.	.	Atlas-SNP
GYPA	2993	hgsc.bcm.edu	hg19	4	145039884	145039884	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	GYPA,right_upper_lobe,carcinoma,0,1	GYPA	NM_002099	exon4	c.A254T	p.H85L	AAATGATGGGCAA	.	370.0	87.0	722.0	0.0	.	27	.	.	Atlas-SNP
FAM53C	51307	hgsc.bcm.edu	hg19	5	137681062	137681062	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	FAM53C	NM_001135647	exon4	c.C685T	p.R229C	CCTCAGCGCCGCT	.	49.0	14.0	29.0	0.0	.	35	.	.	Atlas-SNP
TYW1	55253	hgsc.bcm.edu	hg19	7	66582482	66582482	+	Silent	SNP	G	G	A	rs13221716		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	TYW1	NM_018264	exon13	c.G1575A	p.P525P	CGAGCCGGTTACT	.	198.0	8.0	186.0	0.0	.	71	.	.	Atlas-SNP
CHPF2	54480	hgsc.bcm.edu	hg19	7	150934562	150934562	+	Missense_Mutation	SNP	G	G	A	rs139379425	bycluster;byfrequency;alternate_allele	TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	CHPF2	NM_019015	exon4	c.G1114A	p.V372M	TTTGAGGTGCTGG	.	236.0	62.0	97.0	0.0	.	52	.	G|1.000;T|0.000	Atlas-SNP
TNKS	8658	hgsc.bcm.edu	hg19	8	9627614	9627614	+	Splice_Site	SNP	A	A	T	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	TNKS	NM_003747	exon26	c.3741-2A>T	.	TTCCTTAGACAAA	.	38.0	21.0	28.0	0.0	.	198	.	.	Atlas-SNP
RAB11FIP1	80223	hgsc.bcm.edu	hg19	8	37756823	37756823	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	RAB11FIP1	NM_025151	exon1	c.A137T	p.Q46L	CCCACCTGGATCA	.	79.0	26.0	24.0	0.0	.	105	.	.	Atlas-SNP
MMP16	4325	hgsc.bcm.edu	hg19	8	89180036	89180036	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	MMP16	NM_005941	exon4	c.G571A	p.G191S	GGAAACCAGATGC	.	135.0	33.0	188.0	0.0	.	176	.	.	Atlas-SNP
TMC1	117531	hgsc.bcm.edu	hg19	9	75355074	75355074	+	Silent	SNP	T	T	A	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	TMC1	NM_138691	exon9	c.T402A	p.L134L	GGCTCTTGGGAAA	.	275.0	67.0	271.0	0.0	.	87	.	.	Atlas-SNP
HEMGN	55363	hgsc.bcm.edu	hg19	9	100693389	100693389	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	HEMGN	NM_197978	exon3	c.A288G	p.I96M	CTCCACTATTTCC	.	166.0	21.0	197.0	0.0	.	55	.	.	Atlas-SNP
CDK5RAP2	55755	hgsc.bcm.edu	hg19	9	123177407	123177407	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	CDK5RAP2,NS,carcinoma,0,2	CDK5RAP2	NM_018249	exon28	c.G4208A	p.R1403Q	AAAGTTCGAATTT	.	280.0	32.0	209.0	0.0	.	157	.	.	Atlas-SNP
MAPKAP1	79109	hgsc.bcm.edu	hg19	9	128230302	128230302	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	MAPKAP1	NM_001006617	exon10	c.A1294G	p.I432V	AATCGATTGAGAT	.	394.0	30.0	384.0	0.0	.	68	.	.	Atlas-SNP
PCDH15	65217	hgsc.bcm.edu	hg19	10	55839135	55839135	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	PCDH15_ENST00000417177,caecum,carcinoma,+1,3	PCDH15	NM_001142763	exon18	c.C2062T	p.R688C	TGTAGCGATCAGT	.	151.0	61.0	264.0	1.0	.	1715	.	.	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	hg19	10	129901092	129901092	+	Silent	SNP	T	T	A	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	MKI67	NM_002417	exon13	c.A9012T	p.G3004G	GACGCTTCCATCT	.	73.0	32.0	107.0	0.0	.	363	.	.	Atlas-SNP
OR8H2	390151	hgsc.bcm.edu	hg19	11	55872687	55872687	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	OR8H2,NS,carcinoma,0,1	OR8H2	NM_001005200	exon1	c.C169T	p.H57Y	CAGCTTCACACTC	.	302.0	33.0	301.0	1.0	.	117	.	.	Atlas-SNP
SUV420H1	51111	hgsc.bcm.edu	hg19	11	67957441	67957441	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	SUV420H1	NM_017635	exon2	c.A103T	p.T35S	TCCCCGTGTGCTG	.	462.0	122.0	538.0	0.0	.	125	.	.	Atlas-SNP
LRTOMT	220074	hgsc.bcm.edu	hg19	11	71819726	71819726	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	LRTOMT	NM_001145309	exon9	c.C631A	p.L211M	GCAGACCTGGTGC	.	36.0	9.0	28.0	0.0	.	20	.	.	Atlas-SNP
PICALM	8301	hgsc.bcm.edu	hg19	11	85712084	85712084	+	Silent	SNP	A	A	G	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	PICALM	NM_007166	exon10	c.T1011C	p.A337A	CTTTAAAGCTTTC	.	584.0	158.0	520.0	0.0	.	82	.	.	Atlas-SNP
PRMT8	56341	hgsc.bcm.edu	hg19	12	3702274	3702274	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	PRMT8	NM_019854	exon10	c.G1111A	p.D371N	GACCTCGATTTCA	.	126.0	15.0	108.0	0.0	.	97	.	.	Atlas-SNP
PCDH20	64881	hgsc.bcm.edu	hg19	13	61987587	61987587	+	Silent	SNP	C	C	T	rs201107730	by1000genomes;alternate_allele	TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	PCDH20_ENST00000409186,caecum,carcinoma,0,2	PCDH20	NM_022843	exon2	c.G645A	p.S215S	CCACACCGAGATC	.	92.0	20.0	107.0	1.0	.	265	.	C|1.000;A|0.000	Atlas-SNP
TMEM260	0	hgsc.bcm.edu	hg19	14	57075883	57075883	+	Silent	SNP	C	C	G	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	.	NM_017799	exon6	c.C696G	p.P232P	GCTGCCCTATGTC	.	610.0	133.0	582.0	0.0	.	.	.	.	Atlas-SNP
ADAMTS7	11173	hgsc.bcm.edu	hg19	15	79063584	79063584	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	ADAMTS7	NM_014272	exon16	c.G2438A	p.G813D	TGGCCACCTGCCT	.	208.0	39.0	142.0	0.0	.	142	.	.	Atlas-SNP
CDH1	999	hgsc.bcm.edu	hg19	16	68856129	68856129	+	Splice_Site	SNP	G	G	A	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	CDH1,NS,carcinoma,0,2	CDH1	NM_004360	exon12	c.1936+1G>A	.	ACCCAAGTGGGTA	.	89.0	17.0	82.0	0.0	.	535	.	.	Atlas-SNP
SGCA	6442	hgsc.bcm.edu	hg19	17	48244792	48244792	+	Missense_Mutation	SNP	G	G	T	rs371675217	alternate_allele	TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	SGCA,colon,carcinoma,0,1	SGCA	NM_001135697	exon2	c.G101T	p.R34L	TGGGCCGTGTCTT	.	219.0	51.0	130.0	0.0	.	35	.	.	Atlas-SNP
SIPA1L3	23094	hgsc.bcm.edu	hg19	19	38610466	38610466	+	Silent	SNP	C	C	T	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	SIPA1L3	NM_015073	exon9	c.C2812T	p.L938L	ATCTTCCTACAGG	.	76.0	31.0	47.0	0.0	.	150	.	.	Atlas-SNP
KRTAP10-11	386678	hgsc.bcm.edu	hg19	21	46066650	46066650	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	KRTAP10-11	NM_198692	exon1	c.C275G	p.S92C	GCACCTCCTCCCC	.	247.0	23.0	191.0	0.0	.	36	.	.	Atlas-SNP
GPR82	27197	hgsc.bcm.edu	hg19	X	41586732	41586732	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	GPR82	NM_080817	exon3	c.T453A	p.F151L	CAACTTTGCTAGA	.	100.0	13.0	182.0	0.0	.	52	.	.	Atlas-SNP
SMC1A	8243	hgsc.bcm.edu	hg19	X	53409455	53409455	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	SMC1A	NM_006306	exon21	c.A3257T	p.K1086M	AGGGCCTTATAGA	.	139.0	38.0	137.0	0.0	.	112	.	.	Atlas-SNP
TCEANC2	127428	hgsc.bcm.edu	hg19	1	54520147	54520148	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	TCEANC2	NM_153035	exon2	c.52_53insT	p.K18fs	.	.	151.0	43.0	110.0	0.0	.	17	.	.	Atlas-Indel,Pindel
C18orf8	29919	hgsc.bcm.edu	hg19	18	21104108	21104109	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	C18orf8	NM_013326	exon11	c.976_977insC	p.T326fs	.	.	170.0	10.0	155.0	0.0	.	58	.	.	Atlas-INDEL
ANKRD17	26057	hgsc.bcm.edu	hg19	4	74043114	74043115	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	ANKRD17	NM_198889	exon2	c.530_531insG	p.A177fs	.	.	129.0	10.0	158.0	0.0	.	214	.	.	Atlas-INDEL
KAT2A	2648	hgsc.bcm.edu	hg19	17	40272817	40272818	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	KAT2A,NS,carcinoma,0,2	KAT2A	NM_021078	exon2	c.370_371insG	p.K124fs	.	.	166.0	34.0	106.0	0.0	.	54	.	.	Atlas-INDEL
VGF	7425	hgsc.bcm.edu	hg19	7	100807026	100807028	+	In_Frame_Del	DEL	CCT	CCT	-	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	CCT	CCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	VGF	NM_003378	exon2	c.1098_1100del	p.366_367del	.	.	126.0	11.0	46.0	0.0	.	29	.	.	Atlas-INDEL
USP37	57695	hgsc.bcm.edu	hg19	2	219423315	219423315	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	USP37	NM_020935	exon4	c.63delG	p.K21fs	.	.	299.0	86.0	328.0	0.0	.	76	.	.	Atlas-Indel,Pindel
HOXA10	3206	hgsc.bcm.edu	hg19	7	27213355	27213356	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	HOXA10	NM_018951	exon1	c.571_572insC	p.F191fs	.	.	97.0	10.0	17.0	0.0	.	55	.	.	Atlas-INDEL
CDHR5	53841	hgsc.bcm.edu	hg19	11	618063	618064	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	CDHR5	NM_021924	exon14	c.2009_2010insG	p.A670fs	.	.	95.0	17.0	68.0	0.0	.	77	.	.	Atlas-INDEL
KRTAP5-11	440051	hgsc.bcm.edu	hg19	11	71293866	71293867	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	KRTAP5-11	NM_001005405	exon1	c.18_19insG	p.C6fs	.	.	300.0	22.0	224.0	0.0	.	36	.	.	Atlas-INDEL
SPTBN2	6712	hgsc.bcm.edu	hg19	11	66461311	66461312	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	SPTBN2	NM_006946	exon22	c.4525_4526insG	p.P1509fs	.	.	116.0	17.0	95.0	0.0	.	188	.	.	Atlas-INDEL
BAP1	8314	hgsc.bcm.edu	hg19	3	52437456	52437456	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	BAP1	NM_004656	exon13	c.1706delT	p.V569fs	.	.	53.0	19.0	47.0	0.0	.	371	.	.	Atlas-INDEL
CBS	875	hgsc.bcm.edu	hg19	21	44492127	44492128	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	CBS	NM_000071	exon3	c.177_178insC	p.P59fs	.	.	191.0	13.0	123.0	0.0	.	85	.	.	Atlas-INDEL
MAPKBP1	23005	hgsc.bcm.edu	hg19	15	42110257	42110257	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	MAPKBP1	NM_001128608	exon18	c.1972delC	p.Q658fs	.	.	192.0	45.0	147.0	0.0	.	120	.	.	Atlas-Indel,Pindel
GZMK	3003	hgsc.bcm.edu	hg19	5	54320547	54320548	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	GZMK	NM_002104	exon2	c.124_125insC	p.A42fs	.	.	174.0	11.0	159.0	0.0	.	39	.	.	Atlas-INDEL
EFCC1	79825	hgsc.bcm.edu	hg19	3	128758638	128758639	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	.	NM_024768	exon8	c.1744_1745insC	p.A582fs	.	.	172.0	14.0	151.0	0.0	.	.	.	.	Atlas-INDEL
ZKSCAN8	7745	hgsc.bcm.edu	hg19	6	28121267	28121268	+	In_Frame_Ins	INS	-	-	AAA	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	.	NM_006298	exon6	c.1209_1210insAAA	p.E403delinsEK	.	.	106.0	13.0	83.0	0.0	.	.	.	.	Atlas-INDEL
COL12A1	1303	hgsc.bcm.edu	hg19	6	75806972	75806973	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	COL12A1	NM_004370	exon59	c.8574_8575insC	p.P2858fs	.	.	171.0	20.0	137.0	0.0	.	385	.	.	Atlas-INDEL
POU6F1	5463	hgsc.bcm.edu	hg19	12	51589910	51589911	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	POU6F1	NM_002702	exon3	c.92_93insG	p.A31fs	.	.	116.0	13.0	58.0	0.0	.	31	.	.	Atlas-INDEL
CCDC104	112942	hgsc.bcm.edu	hg19	2	55772122	55772124	+	In_Frame_Del	DEL	AAG	AAG	-	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	CCDC104	NM_080667	exon10	c.1006_1008del	p.336_336del	.	.	259.0	59.0	439.0	0.0	.	35	.	.	Atlas-Indel,Pindel
AMTN	401138	hgsc.bcm.edu	hg19	4	71396955	71396955	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	AMTN	NM_212557	exon8	c.556delA	p.T186fs	.	.	202.0	14.0	184.0	0.0	.	28	.	.	Atlas-INDEL
EPN1	29924	hgsc.bcm.edu	hg19	19	56206198	56206199	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	EPN1	NM_001130071	exon10	c.1628_1629del	p.543_543del	.	.	105.0	11.0	71.0	0.0	.	98	.	.	Atlas-INDEL
CHSY1	22856	hgsc.bcm.edu	hg19	15	101717654	101717655	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5260-01A-01D-A12Z-10	TCGA-CC-5260-10B-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3bacc189-01b8-46cc-a442-f393c0f428c6	bf471c04-91b1-4ccc-9cd2-101b7f008edc	.	CHSY1	NM_014918	exon3	c.2348_2349insG	p.E783fs	.	.	302.0	28.0	240.0	0.0	.	60	.	.	Atlas-INDEL
