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
PIGV	55650	hgsc.bcm.edu	hg19	1	27121059	27121059	+	Silent	SNP	C	C	T	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	PIGV	NM_001202554	exon3	c.C534T	p.F178F	GACATTCAGTGCC	.	180.0	57.0	116.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
SLC9A1	6548	hgsc.bcm.edu	hg19	1	27428600	27428600	+	Silent	SNP	C	C	T	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	SLC9A1	NM_003047	exon9	c.G1842A	p.L614L	GGAAGGCAGGGAC	.	270.0	74.0	166.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
MACF1	23499	hgsc.bcm.edu	hg19	1	39907695	39907695	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	MACF1	NM_012090	exon72	c.T12567G	p.N4189K	CCTCAATACTGTT	.	45.0	12.0	217.0	0.0	.	909	.	.	.	none	.	.	PASS	Atlas-SNP
MCOLN3	55283	hgsc.bcm.edu	hg19	1	85491700	85491700	+	Silent	SNP	A	A	G	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	MCOLN3	NM_018298	exon9	c.T1017C	p.N339N	CCATCCATTGACA	.	40.0	13.0	64.0	0.0	.	74	.	.	.	none	.	.	PASS	Atlas-SNP
ATP1A2	477	hgsc.bcm.edu	hg19	1	160105304	160105304	+	Silent	SNP	C	C	A	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	ATP1A2	NM_000702	exon16	c.C2196A	p.G732G	CATGGGCATCTCT	.	246.0	97.0	142.0	0.0	.	167	.	.	.	none	.	.	PASS	Atlas-SNP
IRF6	3664	hgsc.bcm.edu	hg19	1	209964089	209964089	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	IRF6	NM_006147	exon7	c.C811G	p.L271V	GCTCCAGGCTGAC	.	167.0	71.0	229.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
PRKCE	5581	hgsc.bcm.edu	hg19	2	45879507	45879507	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	PRKCE	NM_005400	exon1	c.G268C	p.G90R	CCCATAGGCTACG	.	98.0	43.0	53.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
REV1	51455	hgsc.bcm.edu	hg19	2	100019166	100019166	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	REV1	NM_016316	exon21	c.G3482A	p.G1161E	ACAGCTCCAGCTA	.	123.0	51.0	198.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
NUP210	23225	hgsc.bcm.edu	hg19	3	13415370	13415370	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	NUP210	NM_024923	exon12	c.C1435T	p.H479Y	CACCGTGGGCCTG	.	65.0	25.0	40.0	0.0	.	182	.	.	.	none	.	.	PASS	Atlas-SNP
TRANK1	9881	hgsc.bcm.edu	hg19	3	36873055	36873055	+	Silent	SNP	C	C	T	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	TRANK1	NM_014831	exon21	c.G7887A	p.L2629L	ACAGAGCAGGCGG	.	85.0	32.0	49.0	0.0	.	398	.	.	.	none	.	.	PASS	Atlas-SNP
ACAA1	30	hgsc.bcm.edu	hg19	3	38178134	38178134	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	ACAA1	NM_001130410	exon2	c.G214C	p.V72L	TGAGAACCGCGGT	.	94.0	28.0	60.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
HPSE	10855	hgsc.bcm.edu	hg19	4	84243394	84243394	+	Silent	SNP	G	G	A	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	HPSE	NM_001199830	exon2	c.C351T	p.Y117Y	TTGCCAGTAACTT	.	56.0	24.0	166.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
FAM198B	51313	hgsc.bcm.edu	hg19	4	159092402	159092402	+	Silent	SNP	A	A	T	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	FAM198B	NM_016613	exon2	c.T126A	p.T42T	ACACGCAGTGCCC	.	301.0	115.0	172.0	0.0	.	134	.	.	.	none	.	.	PASS	Atlas-SNP
FAM173B	134145	hgsc.bcm.edu	hg19	5	10249973	10249973	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	FAM173B	NM_199133	exon1	c.G13A	p.G5R	CACCTCCTCCTCC	.	122.0	45.0	116.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGEF28	64283	hgsc.bcm.edu	hg19	5	73163796	73163796	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	NP_001073948_1,NS,carcinoma,0,2	.	NM_001080479	exon19	c.G2248C	p.G750R	ACTGTGGGACAGG	.	33.0	12.0	81.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
SHROOM1	134549	hgsc.bcm.edu	hg19	5	132160478	132160478	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	SHROOM1	NM_133456	exon3	c.C1070A	p.P357H	TCTGCAGGATACA	.	204.0	78.0	110.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
SEC24A	10802	hgsc.bcm.edu	hg19	5	134002687	134002687	+	Splice_Site	SNP	G	G	A	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	SEC24A	NM_001252231	exon3	c.739+1G>A	.	AAGAAGGTAAGTG	.	137.0	50.0	99.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
SPOCK1	6695	hgsc.bcm.edu	hg19	5	136834142	136834142	+	Missense_Mutation	SNP	C	C	A	rs200001053	by1000genomes;alternate_allele	TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	SPOCK1	NM_004598	exon2	c.G106T	p.G36C	AATTGCCGTGGTT	.	56.0	17.0	37.0	0.0	.	58	.	.	.	alt	C|1.000;G|0.000	.	PASS	Atlas-SNP
KIF6	221458	hgsc.bcm.edu	hg19	6	39313488	39313488	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	KIF6	NM_145027	exon21	c.C2309A	p.P770Q	TCCAGTGGGGTGC	.	67.0	29.0	53.0	0.0	.	233	.	.	.	none	.	.	PASS	Atlas-SNP
NR2E1	7101	hgsc.bcm.edu	hg19	6	108499383	108499383	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	NR2E1	NM_003269	exon5	c.T580G	p.F194V	CTTCTCTTCATGA	.	79.0	29.0	181.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
HIPK2	28996	hgsc.bcm.edu	hg19	7	139299101	139299101	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	HIPK2	NM_022740	exon8	c.A1921G	p.T641A	GGGCTGTTCCTGT	.	107.0	46.0	39.0	0.0	.	192	.	.	.	none	.	.	PASS	Atlas-SNP
SLC35G5	83650	hgsc.bcm.edu	hg19	8	11188719	11188719	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	AMAC1L2,NS,carcinoma,0,1	.	NM_054028	exon1	c.G104A	p.G35D	CCTCTGGTGCCAC	.	273.0	14.0	118.0	1.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
FGFR1	2260	hgsc.bcm.edu	hg19	8	38271216	38271216	+	Missense_Mutation	SNP	G	G	T	rs377620009	alternate_allele	TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	Q7Z2S2_HUMAN,NS,carcinoma,0,4	FGFR1	NM_001174067	exon19	c.C2492A	p.P831Q	GGCAGCGGCTCAT	.	50.0	3.0	40.0	0.0	.	284	.	.	.	alt	.	.	PASS	Atlas-SNP
TYRP1	7306	hgsc.bcm.edu	hg19	9	12694339	12694339	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	TYRP1	NM_000550	exon2	c.C343G	p.P115A	TGCCGTCCTGGCT	.	48.0	14.0	63.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
KIF12	113220	hgsc.bcm.edu	hg19	9	116859620	116859620	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	KIF12	NM_138424	exon4	c.T193A	p.F65I	TCCCAAATTCCAC	.	92.0	32.0	71.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
METTL10	399818	hgsc.bcm.edu	hg19	10	126477651	126477651	+	Silent	SNP	A	A	G	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	METTL10	NM_212554	exon3	c.T252C	p.L84L	AATATCAAGCACT	.	110.0	39.0	182.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
OTUB1	55611	hgsc.bcm.edu	hg19	11	63756155	63756155	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	OTUB1	NM_017670	exon3	c.G150T	p.E50D	GTCAGAGCGGCTG	.	515.0	141.0	346.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
IGSF9B	22997	hgsc.bcm.edu	hg19	11	133814179	133814179	+	Silent	SNP	C	C	A	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	IGSF9B	NM_014987	exon3	c.G345T	p.V115V	CATGAGCACTTTG	.	67.0	32.0	59.0	0.0	.	290	.	.	.	none	.	.	PASS	Atlas-SNP
ATP11A	23250	hgsc.bcm.edu	hg19	13	113516824	113516824	+	Missense_Mutation	SNP	G	G	A	rs140812688		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	ATP11A	NM_032189	exon25	c.G2926A	p.A976T	TTTGACGCACTGG	.	92.0	38.0	86.0	0.0	.	225	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
ATP11A	23250	hgsc.bcm.edu	hg19	13	113516825	113516825	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	ATP11A	NM_032189	exon25	c.C2927G	p.A976G	TTGACGCACTGGT	.	92.0	38.0	86.0	0.0	.	225	.	.	.	none	.	.	PASS	Atlas-SNP
ZFYVE26	23503	hgsc.bcm.edu	hg19	14	68282659	68282659	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	ZFYVE26	NM_015346	exon2	c.G22T	p.E8X	CTTCCTCTTTTCC	.	64.0	24.0	56.0	0.0	.	223	.	.	.	none	.	.	PASS	Atlas-SNP
DICER1	23405	hgsc.bcm.edu	hg19	14	95556880	95556880	+	Silent	SNP	G	G	T	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	DICER1	NM_030621	exon28	c.C5724A	p.A1908A	TCGGAGGGCTCTT	.	95.0	36.0	468.0	0.0	.	181	.	.	.	none	.	.	PASS	Atlas-SNP
SIVA1	10572	hgsc.bcm.edu	hg19	14	105222013	105222013	+	Silent	SNP	C	C	T	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	SIVA1	NM_006427	exon2	c.C165T	p.D55D	CCTGGACCACGTG	.	314.0	98.0	228.0	0.0	.	12	.	.	.	none	.	.	PASS	Atlas-SNP
CES4A	283848	hgsc.bcm.edu	hg19	16	67038037	67038037	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	CES4A	NM_173815	exon9	c.C990A	p.D330E	AGATGACCCTTTG	.	399.0	143.0	284.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
KAT7	11143	hgsc.bcm.edu	hg19	17	47869250	47869250	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	.	NM_001199158	exon2	c.G18T	p.R6S	ACAGAGGAATGCA	.	434.0	102.0	322.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ACSBG2	81616	hgsc.bcm.edu	hg19	19	6177251	6177251	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	ACSBG2,NS,carcinoma,0,4	ACSBG2	NM_030924	exon8	c.T750G	p.I250M	GTGGATTGCAGGA	.	87.0	4.0	109.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
ITPKC	80271	hgsc.bcm.edu	hg19	19	41223385	41223385	+	Silent	SNP	A	A	T	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	ITPKC	NM_025194	exon1	c.A345T	p.P115P	GGAGCCAGACAGG	.	201.0	65.0	139.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
ALDH16A1	126133	hgsc.bcm.edu	hg19	19	49971767	49971767	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	ALDH16A1	NM_153329	exon15	c.A2068T	p.T690S	GGCAACACTGTGG	.	542.0	197.0	345.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF134	7693	hgsc.bcm.edu	hg19	19	58131703	58131703	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	ZNF134	NM_003435	exon3	c.C216A	p.H72Q	TACACACCATGGA	.	82.0	29.0	293.0	1.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
HTATSF1	27336	hgsc.bcm.edu	hg19	X	135594033	135594033	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	HTATSF1	NM_001163280	exon10	c.A2129T	p.E710V	ATGAGGAGGAAGA	.	17.0	14.0	131.0	1.0	.	66	.	.	.	none	.	.	PASS	Atlas-SNP
CEP192	55125	hgsc.bcm.edu	hg19	18	13049324	13049324	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	CEP192	NM_032142	exon16	c.2533delG	p.V845fs	.	.	61.0	19.0	249.0	0.0	.	340	.	0.311475	0	none	.	.	PASS	Atlas-INDEL
BTN3A2	11118	hgsc.bcm.edu	hg19	6	26370805	26370805	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	BTN3A2	NM_007047	exon5	c.688delG	p.E230fs	.	.	196.0	70.0	253.0	0.0	.	44	.	0.357143	0	none	.	.	PASS	Atlas-INDEL
ERF	2077	hgsc.bcm.edu	hg19	19	42752789	42752790	+	In_Frame_Ins	INS	-	-	AAA	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	ERF	NM_006494	exon4	c.1475_1476insTTT	p.C492delinsFC	.	.	249.0	60.0	190.0	0.0	.	47	.	0.240964	0	none	.	.	PASS	Atlas-INDEL
COX7A1	1346	hgsc.bcm.edu	hg19	19	36642400	36642402	+	In_Frame_Del	DEL	TGT	TGT	-	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	TGT	TGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	COX7A1	NM_001864	exon3	c.150_152del	p.50_51del	.	.	242.0	64.0	194.0	0.0	.	9	.	0.264463	0	none	.	.	PASS	Atlas-INDEL
OSBPL5	114879	hgsc.bcm.edu	hg19	11	3143300	3143300	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	OSBPL5	NM_145638	exon5	c.330delG	p.K110fs	.	.	25.0	11.0	9.0	0.0	.	78	.	0.44	0	none	.	.	PASS	Atlas-INDEL
MAST4	375449	hgsc.bcm.edu	hg19	5	66438012	66438022	+	Frame_Shift_Del	DEL	AGGCAGAATTT	AGGCAGAATTT	-	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	AGGCAGAATTT	AGGCAGAATTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	MAST4	NM_001164664	exon20	c.2563_2573del	p.855_858del	.	.	41.0	16.0	271.0	0.0	.	218	.	0.390244	0	none	.	.	PASS	Atlas-INDEL
HIST1H2AD	3013	hgsc.bcm.edu	hg19	6	26199108	26199109	+	Frame_Shift_Del	DEL	CA	CA	-	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	CA	CA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	HIST1H2AD	NM_021065	exon1	c.364_365del	p.122_122del	.	.	285.0	27.0	194.0	0.0	.	20	.	0.0947368	0	none	.	.	PASS	Atlas-INDEL
CTBP1	1487	hgsc.bcm.edu	hg19	4	1232016	1232016	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	CTBP1	NM_001328	exon2	c.151delG	p.V51fs	.	.	275.0	80.0	164.0	0.0	.	30	.	0.290909	0	none	.	.	PASS	Atlas-INDEL
KIAA0430	9665	hgsc.bcm.edu	hg19	16	15716936	15716936	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B9-4115-01A-01D-1252-08	TCGA-B9-4115-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	1c21a098-a845-4933-9153-f44ea58bb752	50da5c23-8dd6-49bd-8316-9d1438d89ee8	.	KIAA0430	NM_001184998	exon11	c.2316delC	p.F772fs	.	.	195.0	63.0	253.0	0.0	.	154	.	0.323077	0	none	.	.	PASS	Atlas-INDEL
