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
CCNL2	81669	hgsc.bcm.edu	hg19	1	1334456	1334456	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CCNL2	NM_030937	exon1	c.C231T	p.L77L	CACGCGGAGGTCG	.	47.0	16.0	46.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
CCNL2	81669	hgsc.bcm.edu	hg19	1	1334592	1334592	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CCNL2	NM_030937	exon1	c.C95T	p.S32L	CCCTGCGACCCTG	.	63.0	28.0	49.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
PLEKHG5	57449	hgsc.bcm.edu	hg19	1	6528353	6528353	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	PLEKHG5	NM_001265592	exon21	c.G2780A	p.R927Q	GGAACTCGTGGGG	.	18.0	8.0	25.0	0.0	.	66	.	.	.	none	.	.	PASS	Atlas-SNP
THRAP3	9967	hgsc.bcm.edu	hg19	1	36748232	36748232	+	Missense_Mutation	SNP	G	G	A	rs148045717		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	THRAP3,NS,malignant_melanoma,+1,1	THRAP3	NM_005119	exon3	c.G68A	p.R23H	GATCTCGTTCTCG	.	182.0	82.0	91.0	0.0	.	93	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
MACF1	23499	hgsc.bcm.edu	hg19	1	39910503	39910503	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	MACF1	NM_012090	exon77	c.G13424C	p.R4475T	AAGAAAGAAAGGT	.	109.0	49.0	83.0	0.0	.	909	.	.	.	none	.	.	PASS	Atlas-SNP
ATP1A1	476	hgsc.bcm.edu	hg19	1	116931284	116931284	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ATP1A1	NM_000701	exon6	c.G526A	p.E176K	AATGGTGAGAAAA	.	251.0	98.0	175.0	0.0	.	87	.	.	.	none	.	.	PASS	Atlas-SNP
NBPF14	25832	hgsc.bcm.edu	hg19	1	148025829	148025829	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	NBPF14	NM_015383	exon1	c.G3A	p.M1I	CCTCAGCATAGAT	.	1037.0	184.0	879.0	1.0	.	107	.	.	.	none	.	.	PASS	Atlas-SNP
TDRD10	126668	hgsc.bcm.edu	hg19	1	154493835	154493835	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	TDRD10	NM_182499	exon6	c.G249A	p.V83V	GAAAGTGACACTT	.	368.0	35.0	311.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
LRRN2	10446	hgsc.bcm.edu	hg19	1	204587907	204587907	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	LRRN2	NM_006338	exon3	c.G1214A	p.R405H	GGGAGGCGCTGGA	.	116.0	8.0	140.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
SLC26A9	115019	hgsc.bcm.edu	hg19	1	205888030	205888030	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	SLC26A9	NM_134325	exon19	c.G2194A	p.D732N	CTGCGTCATGTAT	.	646.0	307.0	502.0	2.0	.	176	.	.	.	none	.	.	PASS	Atlas-SNP
ETAA1	54465	hgsc.bcm.edu	hg19	2	67631299	67631299	+	Silent	SNP	A	A	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ETAA1	NM_019002	exon5	c.A1485G	p.Q495Q	AATTCAAAATTGT	.	89.0	44.0	51.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC108	255101	hgsc.bcm.edu	hg19	2	219886640	219886640	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CCDC108	NM_194302	exon18	c.G2992A	p.E998K	CCAGCTCCTTTTC	.	159.0	90.0	279.0	0.0	.	208	.	.	.	none	.	.	PASS	Atlas-SNP
EFHB	151651	hgsc.bcm.edu	hg19	3	19925989	19925989	+	Silent	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	EFHB	NM_144715	exon11	c.C2052G	p.L684L	TGTCCGGAGAGTC	.	190.0	85.0	129.0	0.0	.	186	.	.	.	none	.	.	PASS	Atlas-SNP
COL6A6	131873	hgsc.bcm.edu	hg19	3	130287049	130287049	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	COL6A6,colon,carcinoma,0,1	COL6A6	NM_001102608	exon5	c.G2002A	p.D668N	TTCAGCGACATCA	.	330.0	152.0	239.0	0.0	.	497	.	.	.	none	.	.	PASS	Atlas-SNP
FGFR3	2261	hgsc.bcm.edu	hg19	4	1803568	1803568	+	Missense_Mutation	SNP	C	C	G	rs121913483	bycluster	TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	FGFR3_ENST00000340107,bladder,carcinoma,0,1251	FGFR3	NM_001163213	exon7	c.C746G	p.S249C	AGCGCTCCCCGCA	.	32.0	14.0	44.0	1.0	.	3320	.	.	.	weak	.	.	PASS	Atlas-SNP
UNC5C	8633	hgsc.bcm.edu	hg19	4	96127913	96127913	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	UNC5C,NS,carcinoma,0,1	UNC5C	NM_003728	exon11	c.C1768A	p.P590T	CCACAGGGGTCAA	.	106.0	20.0	87.0	0.0	.	141	.	.	.	none	.	.	PASS	Atlas-SNP
EXOSC9	5393	hgsc.bcm.edu	hg19	4	122722582	122722582	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	EXOSC9	NM_001034194	exon1	c.G3A	p.M1I	CACCATGAAGGAA	.	172.0	69.0	193.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHGA3	56112	hgsc.bcm.edu	hg19	5	140725009	140725009	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	PCDHGA3	NM_032011	exon1	c.C1409T	p.S470F	GAGCCTCCATCTT	.	308.0	143.0	231.0	0.0	.	246	.	.	.	none	.	.	PASS	Atlas-SNP
CLINT1	9685	hgsc.bcm.edu	hg19	5	157240138	157240138	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CLINT1	NM_014666	exon5	c.G450C	p.K150N	TGCTTTCTTTCGC	.	168.0	83.0	125.0	0.0	.	86	.	.	.	none	.	.	PASS	Atlas-SNP
OR14J1	442191	hgsc.bcm.edu	hg19	6	29274483	29274483	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	OR14J1	NM_030946	exon1	c.C17T	p.S6L	TGACTTCAATGAG	.	408.0	159.0	258.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
BRD2	6046	hgsc.bcm.edu	hg19	6	32945959	32945959	+	Silent	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	BRD2	NM_005104	exon10	c.C1635G	p.P545P	CAAGCCCAAGAGG	.	91.0	36.0	99.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
BRD2	6046	hgsc.bcm.edu	hg19	6	32947799	32947799	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	BRD2	NM_001199455	exon11	c.C2141G	p.S714X	GTGATTCAAACCC	.	105.0	44.0	72.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
CHRM2	1129	hgsc.bcm.edu	hg19	7	136700056	136700056	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CHRM2	NM_001006632	exon3	c.G444T	p.W148C	TGCCTGGGTCCTC	.	145.0	26.0	120.0	0.0	.	167	.	.	.	none	.	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	hg19	7	151879016	151879016	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	MLL3_ENST00000355193,NS,carcinoma,0,2	MLL3	NM_170606	exon36	c.C5929T	p.Q1977X	GAAATTGATCTGT	.	722.0	115.0	536.0	0.0	.	1564	.	.	.	none	.	.	PASS	Atlas-SNP
ERLIN2	11160	hgsc.bcm.edu	hg19	8	37597912	37597912	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ERLIN2	NM_001003791	exon3	c.G137A	p.G46D	CCAGCGGCCCTGG	.	521.0	25.0	415.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
ST18	9705	hgsc.bcm.edu	hg19	8	53028901	53028901	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ST18	NM_014682	exon25	c.G2937A	p.L979L	CTCTTTCAGCAGA	.	175.0	69.0	139.0	0.0	.	212	.	.	.	none	.	.	PASS	Atlas-SNP
TYRP1	7306	hgsc.bcm.edu	hg19	9	12704628	12704628	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	TYRP1	NM_000550	exon6	c.C1184A	p.P395Q	TGTCTCCAAATGA	.	380.0	111.0	188.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
C9orf24	84688	hgsc.bcm.edu	hg19	9	34397497	34397497	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	C9orf24	NM_032596	exon1	c.G135A	p.P45P	ACTTACCGGAGTC	.	308.0	87.0	215.0	0.0	.	15	.	.	.	none	.	.	PASS	Atlas-SNP
ALDH1B1	219	hgsc.bcm.edu	hg19	9	38396007	38396007	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ALDH1B1	NM_000692	exon2	c.C262T	p.R88C	GCCTTCCGCCTGG	.	313.0	22.0	221.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
NEBL	10529	hgsc.bcm.edu	hg19	10	21309109	21309109	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	NEBL	NM_001173484	exon3	c.C186T	p.F62F	CGTGGTGAAGGAC	.	193.0	11.0	153.0	0.0	.	199	.	.	.	none	.	.	PASS	Atlas-SNP
SGMS1	259230	hgsc.bcm.edu	hg19	10	52071078	52071078	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	SGMS1	NM_147156	exon9	c.A839G	p.Y280C	TACAGATAGTCCC	.	129.0	57.0	113.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
IDE	3416	hgsc.bcm.edu	hg19	10	94297234	94297234	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	IDE	NM_004969	exon2	c.C172G	p.P58A	CTTCAGGAGACTT	.	210.0	85.0	166.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
RIC8A	60626	hgsc.bcm.edu	hg19	11	209483	209483	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	RIC8A	NM_021932	exon3	c.T209A	p.V70D	AGAGTGTCCGAAT	.	107.0	23.0	142.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
APLNR	187	hgsc.bcm.edu	hg19	11	57004337	57004337	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	APLNR	NM_005161	exon1	c.C142G	p.L48V	GCACCAGACCGTT	.	149.0	70.0	181.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
MS4A15	219995	hgsc.bcm.edu	hg19	11	60540926	60540926	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	MS4A15	NM_001098835	exon5	c.T467A	p.I156N	CAGCCATTCTGCT	.	70.0	39.0	71.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
VWCE	220001	hgsc.bcm.edu	hg19	11	61026184	61026184	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	VWCE	NM_152718	exon20	c.C2831T	p.P944L	CCCACTGGGGGCT	.	178.0	55.0	224.0	0.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
STARD10	10809	hgsc.bcm.edu	hg19	11	72470333	72470333	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	STARD10	NM_006645	exon3	c.G301C	p.E101Q	AAGTCTCAATGAC	.	127.0	64.0	128.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
ARRB1	408	hgsc.bcm.edu	hg19	11	74985127	74985127	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ARRB1	NM_020251	exon11	c.C905G	p.S302C	GTGCTAGAGGCCA	.	366.0	162.0	382.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
RAPGEF3	10411	hgsc.bcm.edu	hg19	12	48142257	48142257	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	RAPGEF3	NM_001098531	exon12	c.C1223T	p.S408F	GCACTGGAATCTG	.	82.0	30.0	87.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	hg19	12	49425839	49425839	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	MLL2	NM_003482	exon39	c.C12649T	p.Q4217X	GCTGCTGAGGACT	.	81.0	36.0	96.0	0.0	.	1173	.	.	.	none	.	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	hg19	12	49426526	49426526	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	MLL2,NS,lymphoid_neoplasm,0,1	MLL2	NM_003482	exon39	c.C11962T	p.Q3988X	GTTGCTGAGGAGA	.	31.0	13.0	42.0	0.0	.	1173	.	.	.	none	.	.	PASS	Atlas-SNP
INSM2	84684	hgsc.bcm.edu	hg19	14	36005048	36005048	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	INSM2	NM_032594	exon1	c.C1590T	p.C530C	GCACTGCCCGTCC	.	116.0	23.0	133.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
FKBP3	2287	hgsc.bcm.edu	hg19	14	45603575	45603575	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	FKBP3	NM_002013	exon1	c.C85T	p.L29L	CCTGCAGAAACTT	.	161.0	59.0	215.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
ZFP36L1	677	hgsc.bcm.edu	hg19	14	69256349	69256349	+	Silent	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ZFP36L1	NM_001244701	exon3	c.G1125C	p.L375L	GCTGCTCAGGTAG	.	196.0	81.0	229.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
MLH3	27030	hgsc.bcm.edu	hg19	14	75514890	75514890	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	MLH3,NS,carcinoma,0,1	MLH3	NM_014381	exon2	c.C1469G	p.S490C	AGGAAAGATTTTT	.	358.0	134.0	223.0	0.0	.	200	.	.	.	none	.	.	PASS	Atlas-SNP
GABRB3	2562	hgsc.bcm.edu	hg19	15	26793190	26793190	+	Nonsense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	GABRB3	NM_021912	exon9	c.C1172G	p.S391X	ATTGCTGAATTCC	.	273.0	125.0	245.0	0.0	.	338	.	.	.	none	.	.	PASS	Atlas-SNP
DMXL2	23312	hgsc.bcm.edu	hg19	15	51857284	51857284	+	Splice_Site	SNP	C	C	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	DMXL2	NM_015263	exon5	c.364+1G>T	.	TAAATACCTTGAG	.	55.0	24.0	31.0	0.0	.	262	.	.	.	none	.	.	PASS	Atlas-SNP
CX3CL1	6376	hgsc.bcm.edu	hg19	16	57413597	57413597	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CX3CL1	NM_002996	exon2	c.C122T	p.S41L	TGACATCAAAGAT	.	109.0	6.0	108.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
WDR59	79726	hgsc.bcm.edu	hg19	16	74990405	74990405	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	WDR59	NM_030581	exon3	c.C208T	p.H70Y	TGTCATGAGGATT	.	123.0	42.0	94.0	0.0	.	66	.	.	.	none	.	.	PASS	Atlas-SNP
ZDHHC7	55625	hgsc.bcm.edu	hg19	16	85010706	85010706	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ZDHHC7	NM_001145548	exon8	c.G856A	p.E286K	CCGTCTCGTCGTT	.	285.0	130.0	223.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
ITGAE	3682	hgsc.bcm.edu	hg19	17	3659152	3659152	+	Missense_Mutation	SNP	A	A	T	rs376670383	alternate_allele	TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ITGAE	NM_002208	exon11	c.T1211A	p.I404N	AAGCCAATCTGTG	.	15.0	8.0	8.0	0.0	.	96	.	.	.	alt	.	.	PASS	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7579415	7579415	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	TP53_ENST00000455263,NS,carcinoma,+1,10	TP53	NM_000546	exon4	c.G272A	p.W91X	AGGGGCCAGGAGG	.	143.0	23.0	128.0	0.0	.	33396	.	.	.	none	.	.	PASS	Atlas-SNP
KRT13	3860	hgsc.bcm.edu	hg19	17	39659037	39659037	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	KRT13	NM_002274	exon5	c.A925T	p.T309S	TGTTGGTAGACAC	.	447.0	195.0	456.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
DBF4B	80174	hgsc.bcm.edu	hg19	17	42828063	42828063	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	DBF4B	NM_145663	exon14	c.C1290T	p.L430L	AACCCTCCTGCCG	.	131.0	59.0	132.0	0.0	.	66	.	.	.	none	.	.	PASS	Atlas-SNP
EPN3	55040	hgsc.bcm.edu	hg19	17	48615544	48615544	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	EPN3	NM_017957	exon3	c.G667A	p.E223K	AGCCGTGAGGAGG	.	43.0	29.0	63.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
EPN3	55040	hgsc.bcm.edu	hg19	17	48616322	48616322	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	EPN3	NM_017957	exon4	c.G759C	p.E253D	GCACGAGAAGGTA	.	24.0	11.0	48.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
SPATA20	64847	hgsc.bcm.edu	hg19	17	48628090	48628090	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	SPATA20	NM_022827	exon11	c.G1195A	p.E399K	AGCGCAGAAGATG	.	450.0	205.0	323.0	1.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
SPATA20	64847	hgsc.bcm.edu	hg19	17	48628385	48628385	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	SPATA20	NM_022827	exon12	c.G1410A	p.Q470Q	GGGCCAGAATGTG	.	145.0	67.0	100.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
TEX2	55852	hgsc.bcm.edu	hg19	17	62238165	62238165	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	TEX2	NM_018469	exon8	c.G2821C	p.E941Q	ACCCTTCTTTGCC	.	1011.0	701.0	408.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
SLC38A10	124565	hgsc.bcm.edu	hg19	17	79249777	79249777	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	SLC38A10	NM_001037984	exon8	c.G904A	p.E302K	GCTGCTCACACAG	.	361.0	77.0	249.0	0.0	.	133	.	.	.	none	.	.	PASS	Atlas-SNP
DSC2	1824	hgsc.bcm.edu	hg19	18	28660162	28660162	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	DSC2	NM_024422	exon10	c.C1420G	p.P474A	GTATTGGAGGGTT	.	427.0	225.0	265.0	0.0	.	168	.	.	.	none	.	.	PASS	Atlas-SNP
C19orf21	126353	hgsc.bcm.edu	hg19	19	757669	757669	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	C19orf21,colon,carcinoma,+1,1	C19orf21	NM_173481	exon2	c.C723T	p.N241N	GGCCAACGGGCAC	.	59.0	29.0	53.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
PIK3R2	5296	hgsc.bcm.edu	hg19	19	18279617	18279617	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	PIK3R2	NM_005027	exon15	c.G1890A	p.T630T	CCGCACGCAGGCA	.	48.0	21.0	65.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
PRR12	57479	hgsc.bcm.edu	hg19	19	50099849	50099849	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	PRR12_ENST00000418929,NS,carcinoma,0,1	PRR12	NM_020719	exon4	c.G2257A	p.A753T	GCAGGCGCCAAGG	.	18.0	6.0	42.0	0.0	.	157	.	.	.	none	.	.	PASS	Atlas-SNP
CPXM1	56265	hgsc.bcm.edu	hg19	20	2775058	2775058	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CPXM1	NM_019609	exon14	c.G1983T	p.W661C	CAGACGCCAATAA	.	106.0	24.0	128.0	0.0	.	107	.	.	.	none	.	.	PASS	Atlas-SNP
CTCFL	140690	hgsc.bcm.edu	hg19	20	56090811	56090811	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CTCFL	NM_001269044	exon5	c.G1139C	p.R380T	GTATCTCTGCTGG	.	573.0	253.0	338.0	0.0	.	97	.	.	.	none	.	.	PASS	Atlas-SNP
ZBTB46	140685	hgsc.bcm.edu	hg19	20	62407208	62407208	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ZBTB46	NM_025224	exon3	c.C1045T	p.L349L	GGCCCAGATAGCT	.	208.0	99.0	176.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
PICK1	9463	hgsc.bcm.edu	hg19	22	38470965	38470965	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	PICK1	NM_012407	exon13	c.C1074G	p.F358L	CGTCTTCCCCATC	.	66.0	25.0	83.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
MKL1	57591	hgsc.bcm.edu	hg19	22	40814967	40814967	+	Missense_Mutation	SNP	G	G	A	rs199908950		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	MKL1	NM_020831	exon12	c.C1475T	p.S492L	AGTGGCGAGGCCT	.	68.0	11.0	77.0	0.0	.	69	.	.	.	weak	G|0.999;A|0.001	0.001	PASS	Atlas-SNP
PARVB	29780	hgsc.bcm.edu	hg19	22	44564537	44564537	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	PARVB	NM_001003828	exon14	c.C1173T	p.T391T	GTTCACCAAGTAC	.	117.0	13.0	103.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	hg19	22	46930992	46930992	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CELSR1	NM_014246	exon1	c.C2076T	p.Y692Y	AAGCTCGTAGGTG	.	48.0	13.0	52.0	0.0	.	242	.	.	.	none	.	.	PASS	Atlas-SNP
STAG2	10735	hgsc.bcm.edu	hg19	X	123176469	123176469	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	STAG2	NM_001042749	exon7	c.C436T	p.R146X	ATAATTCGAAAAA	.	98.0	85.0	63.0	0.0	.	309	.	.	.	none	.	.	PASS	Atlas-SNP
IL9R	3581	hgsc.bcm.edu	hg19	X	155232601	155232601	+	Missense_Mutation	SNP	G	G	A	rs372322566		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	IL9R	NM_176786	exon3	c.G200A	p.R67Q	TGAGGCGAGACAT	.	236.0	84.0	282.0	1.0	.	73	.	.	.	weak	.	.	PASS	Atlas-SNP
ND1	10625	hgsc.bcm.edu	hg19	MT	3413	3413	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	.	ENST00000361390	exon1	c.G107A	p.G36D	GCAAAGGCCCCAA	.	29.0	17.0	167.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	12957	12957	+	Silent	SNP	T	T	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	.	ENST00000361567	exon1	c.T621C	p.N207N	CGCTAATCCAAGC	.	52.0	37.0	162.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
CORO1B	57175	hgsc.bcm.edu	hg19	11	67207603	67207603	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CORO1B	NM_020441	exon8	c.994delT	p.C332fs	.	.	139.0	65.0	172.0	0.0	.	30	.	0.467626	0	none	.	.	PASS	Atlas-INDEL
SMPD2	6610	hgsc.bcm.edu	hg19	6	109763791	109763791	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	SMPD2	NM_003080	exon6	c.453delT	p.H151fs	.	.	259.0	117.0	205.0	0.0	.	25	.	0.451737	0	none	.	.	PASS	Atlas-INDEL
