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
DMRTA2	63950	hgsc.bcm.edu	hg19	1	50885395	50885395	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	DMRTA2	NM_032110	exon3	c.C571G	p.Q191E	ACTTCTGCAACTT	.	171.0	9.0	175.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
PPAP2B	8613	hgsc.bcm.edu	hg19	1	56989998	56989998	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	PPAP2B	NM_003713	exon3	c.A526T	p.I176F	TCTGAATGTAGCC	.	150.0	74.0	145.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
TPO	7173	hgsc.bcm.edu	hg19	2	1481209	1481209	+	Silent	SNP	C	C	T	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	TPO	NM_175719	exon8	c.C1171T	p.L391L	TGCTTCCTGGCCG	.	626.0	273.0	672.0	1.0	.	224	.	.	.	none	.	.	PASS	Atlas-SNP
KCNF1	3754	hgsc.bcm.edu	hg19	2	11053663	11053663	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	KCNF1	NM_002236	exon1	c.G1111A	p.V371I	ACCACCGTCGGCT	.	74.0	40.0	61.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
ATRAID	51374	hgsc.bcm.edu	hg19	2	27435095	27435095	+	Silent	SNP	C	C	T	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	.	NM_080592	exon1	c.C24T	p.H8H	GCTCCACGAGCAG	.	349.0	166.0	374.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ALK	238	hgsc.bcm.edu	hg19	2	29456516	29456516	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	ALK	NM_004304	exon14	c.T2402C	p.I801T	TCTTCTATCACAT	.	124.0	61.0	123.0	0.0	.	533	.	.	.	none	.	.	PASS	Atlas-SNP
PNPT1	87178	hgsc.bcm.edu	hg19	2	55870498	55870498	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	PNPT1	NM_033109	exon24	c.A1969G	p.M657V	CATGCATAGCACT	.	420.0	162.0	435.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	hg19	2	73680351	73680351	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	ALMS1	NM_015120	exon8	c.A6694G	p.I2232V	GTTGTAATAAATA	.	159.0	74.0	147.0	0.0	.	384	.	.	.	none	.	.	PASS	Atlas-SNP
CLASP1	23332	hgsc.bcm.edu	hg19	2	122216460	122216460	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	CLASP1	NM_001207051	exon13	c.A1270G	p.I424V	CCATAATTTTGGC	.	128.0	63.0	109.0	0.0	.	135	.	.	.	none	.	.	PASS	Atlas-SNP
TSN	7247	hgsc.bcm.edu	hg19	2	122513374	122513374	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	TSN	NM_004622	exon1	c.T19A	p.F7I	GAGATCTTCGTGG	.	33.0	16.0	27.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
NFE2L2	4780	hgsc.bcm.edu	hg19	2	178096314	178096314	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	NFE2L2	NM_006164	exon5	c.C1017G	p.F339L	ATCATTGAATTCT	.	216.0	94.0	171.0	0.0	.	225	.	.	.	none	.	.	PASS	Atlas-SNP
PLEKHA3	65977	hgsc.bcm.edu	hg19	2	179358605	179358605	+	Silent	SNP	G	G	T	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	PLEKHA3	NM_019091	exon4	c.G339T	p.L113L	ATCGCTGAAAACC	.	284.0	125.0	288.0	1.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
SGOL1	151648	hgsc.bcm.edu	hg19	3	20215950	20215950	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	SGOL1	NM_001012409	exon6	c.G1073C	p.R358T	TCTTCTCTATTAG	.	187.0	78.0	154.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA2018	205717	hgsc.bcm.edu	hg19	3	113383247	113383247	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	KIAA2018	NM_001009899	exon6	c.A169G	p.M57V	GGATCATATTCTT	.	103.0	40.0	107.0	0.0	.	180	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC37	348807	hgsc.bcm.edu	hg19	3	126137471	126137471	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	CCDC37	NM_182628	exon7	c.G504C	p.K168N	TGTCAAGCGGAGA	.	75.0	5.0	73.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
FGFR3	2261	hgsc.bcm.edu	hg19	4	1806099	1806099	+	Missense_Mutation	SNP	A	A	G	rs121913485	bycluster	TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	FGFR3_ENST00000340107,bladder,carcinoma,0,407	FGFR3	NM_001163213	exon9	c.A1124G	p.Y375C	GTGTGTATGCAGG	.	54.0	24.0	44.0	0.0	.	3320	.	.	.	weak	.	.	PASS	Atlas-SNP
ABLIM2	84448	hgsc.bcm.edu	hg19	4	8082456	8082456	+	Silent	SNP	G	G	A	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	ABLIM2	NM_001130083	exon5	c.C528T	p.G176G	AAAACAGCCCAAG	.	145.0	67.0	141.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
PCDH18	54510	hgsc.bcm.edu	hg19	4	138451594	138451594	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	PCDH18	NM_019035	exon1	c.G1649C	p.G550A	CTTCCTCCATCTC	.	76.0	26.0	80.0	0.0	.	229	.	.	.	none	.	.	PASS	Atlas-SNP
FBXW7	55294	hgsc.bcm.edu	hg19	4	153273874	153273874	+	Silent	SNP	G	G	A	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	FBXW7	NM_018315	exon1	c.C9T	p.V3V	TCTCGGGACACAC	.	59.0	31.0	59.0	0.0	.	2157	.	.	.	none	.	.	PASS	Atlas-SNP
MAP1B	4131	hgsc.bcm.edu	hg19	5	71403432	71403432	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	MAP1B	NM_005909	exon1	c.C74T	p.S25L	CCACCTCGCCTAG	.	72.0	35.0	74.0	0.0	.	243	.	.	.	none	.	.	PASS	Atlas-SNP
SCIN	85477	hgsc.bcm.edu	hg19	7	12689143	12689143	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	SCIN	NM_001112706	exon14	c.G1933T	p.V645F	GATGATGTCATGT	.	158.0	69.0	110.0	0.0	.	105	.	.	.	none	.	.	PASS	Atlas-SNP
RALA	5898	hgsc.bcm.edu	hg19	7	39736427	39736427	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	RALA	NM_005402	exon4	c.C467T	p.T156I	TGGAAACATCTGC	.	318.0	137.0	308.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
COL14A1	7373	hgsc.bcm.edu	hg19	8	121243856	121243856	+	Missense_Mutation	SNP	C	C	T	rs145606030	bycluster	TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	COL14A1	NM_021110	exon19	c.C2348T	p.T783M	TAGGAACGGTCTG	.	112.0	54.0	126.0	0.0	.	292	.	.	.	weak	C|1.000;T|0.000	0.000	PASS	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	hg19	8	144946578	144946578	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	EPPK1	NM_031308	exon1	c.G844T	p.E282X	TACCCTCCAGGTA	.	54.0	21.0	54.0	0.0	.	199	.	.	.	none	.	.	PASS	Atlas-SNP
HKDC1	80201	hgsc.bcm.edu	hg19	10	71010157	71010157	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	HKDC1	NM_025130	exon11	c.T1682C	p.I561T	TCGCCATCCCCCT	.	86.0	5.0	79.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
USP47	55031	hgsc.bcm.edu	hg19	11	11971443	11971443	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	USP47	NM_017944	exon22	c.A3152G	p.K1051R	CATGCAAGTTTCT	.	130.0	43.0	115.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
SLC22A24	283238	hgsc.bcm.edu	hg19	11	62911071	62911071	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	SLC22A24	NM_001136506	exon1	c.G181A	p.D61N	CATTGTCAGACAC	.	108.0	49.0	124.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
NPAS4	266743	hgsc.bcm.edu	hg19	11	66190272	66190272	+	Silent	SNP	C	C	T	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	NPAS4	NM_178864	exon4	c.C558T	p.P186P	AAATCCCGTGTTC	.	88.0	47.0	88.0	0.0	.	133	.	.	.	none	.	.	PASS	Atlas-SNP
YAP1	10413	hgsc.bcm.edu	hg19	11	102033201	102033201	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	YAP1	NM_001130145	exon3	c.C587T	p.T196I	ATCAGACAACAAC	.	88.0	37.0	67.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
SH2B3	10019	hgsc.bcm.edu	hg19	12	111885593	111885593	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	SH2B3	NM_005475	exon7	c.G1370A	p.R457Q	ATGTCCGGCTCTC	.	82.0	43.0	89.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
HECTD4	283450	hgsc.bcm.edu	hg19	12	112607423	112607423	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	.	NM_001109662	exon70	c.C11690G	p.A3897G	CTGGCAGCCTGAC	.	48.0	24.0	46.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
LPAR6	10161	hgsc.bcm.edu	hg19	13	48985593	48985593	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	LPAR6	NM_001162497	exon5	c.G967A	p.E323K	AATTCTCTGCACC	.	151.0	53.0	145.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
DZIP1	22873	hgsc.bcm.edu	hg19	13	96264392	96264392	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	DZIP1	NM_014934	exon11	c.G1213C	p.D405H	GATCATCTATCAT	.	65.0	24.0	55.0	0.0	.	195	.	.	.	none	.	.	PASS	Atlas-SNP
HIF1A	3091	hgsc.bcm.edu	hg19	14	62213681	62213681	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	HIF1A	NM_001243084	exon15	c.A2431G	p.M811V	CAATCAATGGATG	.	125.0	61.0	100.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
TRPM7	54822	hgsc.bcm.edu	hg19	15	50866612	50866612	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	TRPM7,colon,carcinoma,0,2	TRPM7	NM_017672	exon36	c.A5167G	p.M1723V	CAGTCATACATTC	.	85.0	33.0	77.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
TRPM7	54822	hgsc.bcm.edu	hg19	15	50904864	50904864	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	TRPM7,NS,carcinoma,0,1	TRPM7	NM_017672	exon16	c.G1933T	p.G645C	CTTCACCATGTTG	.	109.0	50.0	129.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
SPPL2A	84888	hgsc.bcm.edu	hg19	15	51014331	51014331	+	Silent	SNP	C	C	T	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	SPPL2A	NM_032802	exon13	c.G1317A	p.S439S	TGTAGACGAAACA	.	68.0	27.0	78.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
NEDD4	4734	hgsc.bcm.edu	hg19	15	56207684	56207684	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	NEDD4	NM_198400	exon1	c.A1346G	p.N449S	CCATGGTTTTTGT	.	149.0	70.0	122.0	0.0	.	167	.	.	.	none	.	.	PASS	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	hg19	15	63956789	63956789	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	HERC1_ENST00000443617,right_upper_lobe,carcinoma,0,2	HERC1	NM_003922	exon43	c.G8560A	p.D2854N	AATTATCAGGGCT	.	81.0	32.0	90.0	0.0	.	624	.	.	.	none	.	.	PASS	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	hg19	15	63958332	63958332	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	HERC1	NM_003922	exon42	c.G8341A	p.D2781N	GGGCATCAGCCTC	.	169.0	73.0	146.0	0.0	.	624	.	.	.	none	.	.	PASS	Atlas-SNP
BCL2A1	597	hgsc.bcm.edu	hg19	15	80263200	80263200	+	Silent	SNP	T	T	G	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	BCL2A1	NM_001114735	exon1	c.A262C	p.R88R	CAATTCTTCCCCA	.	166.0	11.0	187.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
ABCC12	94160	hgsc.bcm.edu	hg19	16	48180293	48180293	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	ABCC12	NM_033226	exon1	c.C43T	p.R15X	GGCCTCGCTGGTC	.	85.0	35.0	79.0	0.0	.	190	.	.	.	none	.	.	PASS	Atlas-SNP
LLGL1	3996	hgsc.bcm.edu	hg19	17	18137219	18137219	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	LLGL1	NM_004140	exon5	c.C520G	p.Q174E	GAGGGGCAGACGC	.	27.0	23.0	42.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
HOXB2	3212	hgsc.bcm.edu	hg19	17	46622084	46622084	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	HOXB2	NM_002145	exon1	c.C190T	p.Q64X	GTCTCTGAAGGGT	.	161.0	105.0	121.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
UBE2O	63893	hgsc.bcm.edu	hg19	17	74393911	74393911	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	UBE2O	NM_022066	exon13	c.C2084G	p.A695G	TTGTCAGCCCACA	.	80.0	27.0	79.0	0.0	.	207	.	.	.	none	.	.	PASS	Atlas-SNP
SETBP1	26040	hgsc.bcm.edu	hg19	18	42531807	42531807	+	Silent	SNP	G	G	A	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	SETBP1	NM_015559	exon4	c.G2502A	p.L834L	CAGACTGATGGCC	.	55.0	24.0	62.0	0.0	.	577	.	.	.	none	.	.	PASS	Atlas-SNP
ANKRD27	84079	hgsc.bcm.edu	hg19	19	33119054	33119054	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	ANKRD27	NM_032139	exon15	c.C1355T	p.S452L	ACAACTGAGGGAT	.	89.0	41.0	84.0	0.0	.	86	.	.	.	none	.	.	PASS	Atlas-SNP
FKBP1A	2280	hgsc.bcm.edu	hg19	20	1352846	1352846	+	Silent	SNP	T	T	G	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	FKBP1A	NM_054014	exon4	c.A237C	p.P79P	ATAATCTGGAGAT	.	286.0	170.0	177.0	0.0	.	6	.	.	.	none	.	.	PASS	Atlas-SNP
CEP250	11190	hgsc.bcm.edu	hg19	20	34099427	34099427	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	CEP250	NM_007186	exon35	c.C7301T	p.P2434L	CCAGCCCCAGCAC	.	119.0	72.0	100.0	0.0	.	141	.	.	.	none	.	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	hg19	20	60906117	60906117	+	Silent	SNP	G	G	A	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	LAMA5,NS,carcinoma,-2,1	LAMA5	NM_005560	exon29	c.C3621T	p.I1207I	GCTGCTGATGCAG	.	241.0	166.0	184.0	0.0	.	268	.	.	.	none	.	.	PASS	Atlas-SNP
SLC37A1	54020	hgsc.bcm.edu	hg19	21	43979172	43979172	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	SLC37A1	NM_018964	exon12	c.C954G	p.I318M	CGCCATCAGCTTC	.	97.0	45.0	82.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
LIF	3976	hgsc.bcm.edu	hg19	22	30639798	30639798	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	LIF,NS,carcinoma,0,1	LIF	NM_002309	exon3	c.G451A	p.V151M	ACAGCACGTTGCT	.	91.0	27.0	107.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
APEX2	27301	hgsc.bcm.edu	hg19	X	55033281	55033281	+	Silent	SNP	C	C	T	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	APEX2	NM_014481	exon6	c.C970T	p.L324L	CCACCTCTGTGCA	.	62.0	57.0	76.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
ZMYM3	9203	hgsc.bcm.edu	hg19	X	70472979	70472979	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	ZMYM3	NM_005096	exon2	c.C127T	p.R43X	ATCCTCGAGTTGG	.	224.0	207.0	276.0	2.0	.	137	.	.	.	none	.	.	PASS	Atlas-SNP
ND1	10625	hgsc.bcm.edu	hg19	MT	3860	3860	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	.	ENST00000361390	exon1	c.G554A	p.W185X	TAATATGATTTAT	.	24.0	7.0	13.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	hg19	MT	11168	11168	+	Missense_Mutation	SNP	G	G	A	rs377109096		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	.	ENST00000361381	exon1	c.G409A	p.G137S	CGATGAGGCAACC	.	26.0	9.0	23.0	0.0	.	.	.	.	.	weak	G|0.004;A|0.996	0.996	PASS	Atlas-SNP
KDM6A	7403	hgsc.bcm.edu	hg19	X	44970638	44970638	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	KDM6A	NM_021140	exon29	c.4187delT	p.L1396fs	.	.	47.0	43.0	38.0	0.0	.	274	.	0.914894	0	none	.	.	PASS	Atlas-Indel,Pindel
KLC2	64837	hgsc.bcm.edu	hg19	11	66026154	66026155	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	KLC2	NM_001134774	exon2	c.88_89del	p.30_30del	.	.	103.0	50.0	103.0	0.0	.	50	.	0.485437	0	none	.	.	PASS	Atlas-Indel,Pindel
SIX1	6495	hgsc.bcm.edu	hg19	14	61115779	61115780	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	SIX1	NM_005982	exon1	c.129_130insT	p.L43fs	.	.	79.0	33.0	100.0	0.0	.	40	.	0.417722	0	none	.	.	PASS	Atlas-Indel,Pindel
EP300	2033	hgsc.bcm.edu	hg19	22	41553171	41553201	+	Splice_Site	DEL	GAGTAATGTTTGATGTCACTTGTCTTTCTAG	GAGTAATGTTTGATGTCACTTGTCTTTCTAG	-	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	GAGTAATGTTTGATGTCACTTGTCTTTCTAG	GAGTAATGTTTGATGTCACTTGTCTTTCTAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	.	EP300	.	.	.	.	.	.	91.0	27.0	94.0	0.0	.	367	.	0.296703	0	none	.	.	PASS	Atlas-Indel,Pindel
GGT7	2686	hgsc.bcm.edu	hg19	20	33447370	33447371	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-J7-A8I2-01A-12D-A35Z-10	TCGA-J7-A8I2-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9aace64d-14b2-435a-ab63-3891e2ae6bca	643d9c03-6b50-48da-aab4-0d369ca2392c	GGT7,NS,carcinoma,0,1	GGT7	NM_178026	exon7	c.890_891insC	p.R297fs	.	.	123.0	10.0	96.0	0.0	.	41	.	0.0813008	0	none	.	.	PASS	Atlas-INDEL