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
GABRD	2563	hgsc.bcm.edu	hg19	1	1960690	1960690	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	GABRD	NM_000815	exon7	c.G832A	p.A278T	GTGCCCGCCAGGG	.	56.0	9.0	74.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
FGR	2268	hgsc.bcm.edu	hg19	1	27943445	27943445	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	FGR	NM_001042729	exon7	c.A605T	p.K202I	TCCAGTTTGCGGA	.	139.0	29.0	199.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
MRPS15	64960	hgsc.bcm.edu	hg19	1	36921882	36921882	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	MRPS15	NM_031280	exon7	c.T542C	p.I181T	CAGCATATCTTCT	.	72.0	22.0	67.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
BCAR3	8412	hgsc.bcm.edu	hg19	1	94033045	94033045	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	BCAR3	NM_001261409	exon11	c.C2090G	p.S697C	CATGTGGACTCTG	.	63.0	14.0	99.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
GON4L	54856	hgsc.bcm.edu	hg19	1	155734744	155734744	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	GON4L	NM_032292	exon21	c.T4520C	p.M1507T	TGATACATATTAC	.	303.0	86.0	299.0	0.0	.	392	.	.	.	none	.	.	PASS	Atlas-SNP
GORAB	92344	hgsc.bcm.edu	hg19	1	170508438	170508438	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	GORAB	NM_152281	exon2	c.A224C	p.K75T	GCCAAAAACTTGG	.	149.0	39.0	164.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
EIF2D	1939	hgsc.bcm.edu	hg19	1	206767112	206767112	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	EIF2D	NM_006893	exon14	c.G1540A	p.G514S	CCAGACCATAGGC	.	37.0	8.0	45.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
TP53BP2	7159	hgsc.bcm.edu	hg19	1	223983631	223983631	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	TP53BP2	NM_001031685	exon13	c.G2610T	p.E870D	GTACTCCTCCAGG	.	72.0	19.0	81.0	0.0	.	144	.	.	.	none	.	.	PASS	Atlas-SNP
MYCN	4613	hgsc.bcm.edu	hg19	2	16082258	16082258	+	Silent	SNP	A	A	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	MYCN	NM_005378	exon2	c.A72G	p.L24L	CTCGCTACAGCCC	.	216.0	58.0	264.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
DPY30	84661	hgsc.bcm.edu	hg19	2	32264491	32264491	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	DPY30	NM_032574	exon2	c.A35T	p.Q12L	GATACCTGCGTTT	.	103.0	29.0	117.0	0.0	.	6	.	.	.	none	.	.	PASS	Atlas-SNP
EPAS1	2034	hgsc.bcm.edu	hg19	2	46607787	46607787	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	EPAS1	NM_001430	exon12	c.C1976G	p.T659R	AGCGCACAGAGTT	.	76.0	17.0	90.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
CNTNAP5	129684	hgsc.bcm.edu	hg19	2	125175092	125175092	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	CNTNAP5,NS,haematopoietic_neoplasm,0,1	CNTNAP5	NM_130773	exon4	c.G454A	p.V152I	CGATTTGTTCGCT	.	125.0	41.0	122.0	1.0	.	405	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC141	285025	hgsc.bcm.edu	hg19	2	179843225	179843225	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.,2	CCDC141	NM_173648	exon3	c.G403T	p.E135X	CATTTTCAAAAAA	.	100.0	16.0	127.0	0.0	.	362	.	.	.	none	.	.	PASS	Atlas-SNP
NEU2	4759	hgsc.bcm.edu	hg19	2	233898967	233898967	+	Silent	SNP	C	C	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	NEU2	NM_005383	exon2	c.C343T	p.L115L	CAGCAGCTGCAGA	.	64.0	14.0	111.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
HDAC11	79885	hgsc.bcm.edu	hg19	3	13525052	13525052	+	Silent	SNP	T	T	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	HDAC11	NM_024827	exon3	c.T240G	p.L80L	CTATCTTAATGAG	.	105.0	65.0	180.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
TRAK1	22906	hgsc.bcm.edu	hg19	3	42218379	42218379	+	Silent	SNP	G	G	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	TRAK1_ENST00000543338,NS,carcinoma,0,3	TRAK1	NM_001265608	exon3	c.G360A	p.E120E	TCTTGAGGAGGTA	.	82.0	39.0	126.0	0.0	.	188	.	.	.	none	.	.	PASS	Atlas-SNP
SNRK	54861	hgsc.bcm.edu	hg19	3	43388848	43388848	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	SNRK	NM_017719	exon7	c.A1097T	p.K366I	CAACCAAAATTGA	.	27.0	16.0	55.0	0.0	.	118	.	.	.	none	.	.	PASS	Atlas-SNP
SH3TC1	54436	hgsc.bcm.edu	hg19	4	8230146	8230146	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	SH3TC1	NM_018986	exon12	c.T2725C	p.F909L	GCCAACTTCGGGG	.	82.0	24.0	73.0	0.0	.	105	.	.	.	none	.	.	PASS	Atlas-SNP
NPFFR2	10886	hgsc.bcm.edu	hg19	4	73012854	73012854	+	Silent	SNP	C	C	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	NPFFR2	NM_004885	exon4	c.C894G	p.S298S	CAACTCCCAGAAT	.	58.0	15.0	82.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
FAM13A	10144	hgsc.bcm.edu	hg19	4	89658657	89658657	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	FAM13A	NM_014883	exon21	c.A2612T	p.E871V	TCGCCCTCGATAA	.	85.0	24.0	115.0	0.0	.	181	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA0922	23240	hgsc.bcm.edu	hg19	4	154542029	154542029	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	KIAA0922	NM_001131007	exon27	c.C3689A	p.S1230X	CAGTCTCAAGGTG	.	651.0	188.0	671.0	0.0	.	214	.	.	.	none	.	.	PASS	Atlas-SNP
F2R	2149	hgsc.bcm.edu	hg19	5	76029290	76029290	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	F2R	NM_001992	exon2	c.A1240G	p.N414D	TCTAGTAACCTGA	.	121.0	21.0	143.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM173	340061	hgsc.bcm.edu	hg19	5	138855862	138855862	+	Missense_Mutation	SNP	C	C	T	rs117897081	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	TMEM173	NM_198282	exon8	c.G1124A	p.R375H	TCCGTGCGGAGAG	.	90.0	38.0	105.0	0.0	.	19	.	.	.	alt	C|0.995;A|0.005	.	PASS	Atlas-SNP
UNC5A	90249	hgsc.bcm.edu	hg19	5	176305475	176305475	+	Splice_Site	SNP	G	G	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	UNC5A,NS,carcinoma,0,1	UNC5A	NM_133369	exon13	c.2020-1G>A	.	CCATCAGGAGATC	.	110.0	24.0	115.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
COL19A1	1310	hgsc.bcm.edu	hg19	6	70646796	70646796	+	Silent	SNP	A	A	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	COL19A1	NM_001858	exon8	c.A867G	p.P289P	CATTCCAAACAAG	.	102.0	28.0	122.0	0.0	.	232	.	.	.	none	.	.	PASS	Atlas-SNP
LIMK1	3984	hgsc.bcm.edu	hg19	7	73535230	73535230	+	Silent	SNP	G	G	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	LIMK1	NM_002314	exon15	c.G1632A	p.G544G	CATCGGGCGGGTG	.	126.0	6.0	135.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
SRRT	51593	hgsc.bcm.edu	hg19	7	100485704	100485704	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	SRRT	NM_015908	exon18	c.C2368A	p.Q790K	CCACACCAGACTC	.	148.0	69.0	157.0	0.0	.	108	.	.	.	none	.	.	PASS	Atlas-SNP
ANK1	286	hgsc.bcm.edu	hg19	8	41551436	41551436	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	ANK1,caecum,carcinoma,0,1	ANK1	NM_001142446	exon30	c.G3635A	p.R1212H	AGCAGGCGCAGGC	.	161.0	37.0	176.0	0.0	.	497	.	.	.	none	.	.	PASS	Atlas-SNP
RFX3	5991	hgsc.bcm.edu	hg19	9	3271084	3271084	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	RFX3	NM_134428	exon11	c.G1121C	p.S374T	ATCAGGCTAAATT	.	122.0	35.0	111.0	0.0	.	156	.	.	.	none	.	.	PASS	Atlas-SNP
STXBP1	6812	hgsc.bcm.edu	hg19	9	130438137	130438137	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	STXBP1	NM_001032221	exon14	c.G1165A	p.A389T	ATGCGAGCCATCG	.	92.0	22.0	123.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
ASB6	140459	hgsc.bcm.edu	hg19	9	132400146	132400146	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ASB6	NM_017873	exon6	c.A1189T	p.K397X	GGGCTTTGACCTT	.	29.0	9.0	47.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
ALOX5	240	hgsc.bcm.edu	hg19	10	45936826	45936826	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ALOX5	NM_000698	exon9	c.T1220A	p.I407N	TTGCAATCAACAC	.	67.0	24.0	94.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
NCOA4	8031	hgsc.bcm.edu	hg19	10	51585173	51585173	+	Silent	SNP	G	G	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	NCOA4	NM_001145261	exon9	c.G1320A	p.K440K	TGAGAAGGAGGCT	.	151.0	47.0	175.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
NUDT13	25961	hgsc.bcm.edu	hg19	10	74879906	74879906	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	NUDT13	NM_015901	exon3	c.A214C	p.S72R	CGGCACAGCCTGT	.	52.0	17.0	78.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
ZMIZ1	57178	hgsc.bcm.edu	hg19	10	80968102	80968102	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ZMIZ1	NM_020338	exon6	c.A70T	p.N24Y	TTACAGAATCCTG	.	63.0	16.0	70.0	0.0	.	101	.	.	.	none	.	.	PASS	Atlas-SNP
SORCS1	114815	hgsc.bcm.edu	hg19	10	108371744	108371744	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	SORCS1	NM_001206572	exon22	c.C2958A	p.N986K	ATCCAGGTTTGGA	.	158.0	44.0	161.0	0.0	.	534	.	.	.	none	.	.	PASS	Atlas-SNP
OR5P2	120065	hgsc.bcm.edu	hg19	11	7818418	7818418	+	Silent	SNP	T	T	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	OR5P2	NM_153444	exon1	c.A72T	p.P24P	AAGGATTGGATCA	.	63.0	15.0	68.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
OR5P2	120065	hgsc.bcm.edu	hg19	11	7818419	7818419	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	OR5P2	NM_153444	exon1	c.C71T	p.P24L	AGGATTGGATCAT	.	62.0	15.0	67.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
OR5P2	120065	hgsc.bcm.edu	hg19	11	7818420	7818420	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	OR5P2	NM_153444	exon1	c.C70A	p.P24T	GGATTGGATCATC	.	61.0	15.0	67.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
LGR4	55366	hgsc.bcm.edu	hg19	11	27402259	27402259	+	Splice_Site	SNP	C	C	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	LGR4	NM_018490	exon10	c.831-1G>C	.	AAATGTCTGTGAA	.	223.0	73.0	232.0	0.0	.	87	.	.	.	none	.	.	PASS	Atlas-SNP
PLCB3	5331	hgsc.bcm.edu	hg19	11	64034708	64034708	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	PLCB3	NM_000932	exon30	c.C3466T	p.Q1156X	CAGCAGCAGGTCC	.	101.0	30.0	138.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
NAALADL1	10004	hgsc.bcm.edu	hg19	11	64813975	64813975	+	Silent	SNP	G	G	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	NAALADL1	NM_005468	exon14	c.C1623T	p.Y541Y	GGTGGGGTAGATC	.	138.0	31.0	184.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
CLPB	81570	hgsc.bcm.edu	hg19	11	72145214	72145214	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	CLPB	NM_001258392	exon1	c.A305T	p.D102V	CAGCTGTCCTGTC	.	69.0	15.0	96.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
KCNE3	10008	hgsc.bcm.edu	hg19	11	74168349	74168349	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	KCNE3	NM_005472	exon3	c.A260T	p.K87M	CTACGCTTGTCCA	.	87.0	19.0	119.0	0.0	.	7	.	.	.	none	.	.	PASS	Atlas-SNP
KCNE3	10008	hgsc.bcm.edu	hg19	11	74168350	74168350	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	KCNE3	NM_005472	exon3	c.A259T	p.K87X	TACGCTTGTCCAC	.	87.0	19.0	120.0	0.0	.	7	.	.	.	none	.	.	PASS	Atlas-SNP
FZD4	8322	hgsc.bcm.edu	hg19	11	86663362	86663362	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	FZD4	NM_012193	exon2	c.A436G	p.S146G	ATTTGCTGCAGTT	.	101.0	20.0	146.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
LRIG3	121227	hgsc.bcm.edu	hg19	12	59268266	59268266	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	LRIG3	NM_153377	exon17	c.A2785C	p.M929L	AATACATAGGGCC	.	130.0	48.0	146.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
GPN3	51184	hgsc.bcm.edu	hg19	12	110902939	110902939	+	Silent	SNP	T	T	C	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	GPN3	NM_001164372	exon2	c.A246G	p.A82A	GTGTTCTGCTGCT	.	106.0	18.0	111.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
FAM155A	728215	hgsc.bcm.edu	hg19	13	108518698	108518698	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	FAM155A	NM_001080396	exon1	c.C247A	p.Q83K	GCTGCTGCTGCTG	.	28.0	5.0	16.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
THBS1	7057	hgsc.bcm.edu	hg19	15	39877738	39877738	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	THBS1	NM_003246	exon7	c.A1094G	p.D365G	TTCCTGATGGAGA	.	34.0	7.0	35.0	0.0	.	106	.	.	.	none	.	.	PASS	Atlas-SNP
SPINT1	6692	hgsc.bcm.edu	hg19	15	41136856	41136856	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	SPINT1	NM_181642	exon2	c.C104A	p.A35D	CCCAGGCCGGGCC	.	77.0	23.0	15.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
LRRC57	255252	hgsc.bcm.edu	hg19	15	42837381	42837381	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	LRRC57	NM_153260	exon5	c.G572A	p.S191N	AGCATGCTGAGCT	.	74.0	26.0	85.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
SHC4	399694	hgsc.bcm.edu	hg19	15	49148178	49148178	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	SHC4	NM_203349	exon8	c.C1214A	p.P405H	TGTATGGGGCAGT	.	117.0	28.0	145.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
FBXL22	283807	hgsc.bcm.edu	hg19	15	63889797	63889797	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	FBXL22	NM_203373	exon1	c.C206T	p.P69L	TGGGCCCGGCACT	.	25.0	6.0	58.0	0.0	.	4	.	.	.	none	.	.	PASS	Atlas-SNP
LARP6	55323	hgsc.bcm.edu	hg19	15	71128826	71128826	+	Silent	SNP	T	T	C	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	LARP6	NM_018357	exon2	c.A219G	p.G73G	CTCACCTCCACTT	.	70.0	24.0	81.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
NTRK3	4916	hgsc.bcm.edu	hg19	15	88680721	88680721	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	NTRK3	NM_001243101	exon7	c.A536G	p.E179G	TTGGCCTCCCCCT	.	41.0	4.0	56.0	0.0	.	587	.	.	.	none	.	.	PASS	Atlas-SNP
PARN	5073	hgsc.bcm.edu	hg19	16	14678281	14678281	+	Splice_Site	SNP	T	T	C	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	PARN	NM_001242992	exon16	c.868-2A>G	.	ATATCCTGCAAAC	.	60.0	22.0	95.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
ACSM2A	123876	hgsc.bcm.edu	hg19	16	20489950	20489950	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ACSM2A	NM_001010845	exon11	c.G1232A	p.G411D	ACATTGGCATCAG	.	67.0	24.0	89.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
TNRC6A	27327	hgsc.bcm.edu	hg19	16	24801321	24801321	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	TNRC6A,NS,carcinoma,0,1	TNRC6A	NM_014494	exon6	c.C1358G	p.P453R	CTGGACCAAATAA	.	102.0	25.0	106.0	0.0	.	171	.	.	.	none	.	.	PASS	Atlas-SNP
PYDC1	260434	hgsc.bcm.edu	hg19	16	31228204	31228204	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	PYDC1	NM_152901	exon1	c.T146C	p.I49T	TCCACGATATCTA	.	98.0	23.0	172.0	0.0	.	7	.	.	.	none	.	.	PASS	Atlas-SNP
N4BP1	9683	hgsc.bcm.edu	hg19	16	48576974	48576974	+	Silent	SNP	G	G	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	N4BP1	NM_153029	exon7	c.C2532T	p.P844P	TGGCATGGGCAGG	.	68.0	9.0	76.0	0.0	.	121	.	.	.	none	.	.	PASS	Atlas-SNP
HS3ST3A1	9955	hgsc.bcm.edu	hg19	17	13504436	13504436	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	HS3ST3A1	NM_006042	exon1	c.C11A	p.P4Q	GGGCCCGGAGGGG	.	67.0	15.0	66.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF830	91603	hgsc.bcm.edu	hg19	17	33288777	33288777	+	Silent	SNP	C	C	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ZNF830	NM_052857	exon1	c.C192A	p.L64L	CGAGCTCCTGTGG	.	128.0	53.0	117.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
GGNBP2	79893	hgsc.bcm.edu	hg19	17	34934557	34934557	+	Silent	SNP	C	C	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	GGNBP2,NS,carcinoma,0,1	GGNBP2	NM_024835	exon7	c.C786T	p.C262C	TGTTTGCTGTGAA	.	108.0	24.0	131.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
RPRML	388394	hgsc.bcm.edu	hg19	17	45056083	45056083	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	RPRML	NM_203400	exon1	c.C291A	p.S97R	GATCATGCTCTCG	.	102.0	28.0	106.0	0.0	.	2	.	.	.	none	.	.	PASS	Atlas-SNP
CEP192	55125	hgsc.bcm.edu	hg19	18	13055803	13055803	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	CEP192	NM_032142	exon19	c.A3214T	p.T1072S	TTGAGTACCACAA	.	42.0	14.0	67.0	0.0	.	340	.	.	.	none	.	.	PASS	Atlas-SNP
PHLPP1	23239	hgsc.bcm.edu	hg19	18	60384475	60384475	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	PHLPP1	NM_194449	exon1	c.T1559A	p.L520H	GCTGCCTCATCCG	.	46.0	16.0	80.0	0.0	.	164	.	.	.	none	.	.	PASS	Atlas-SNP
FEM1A	55527	hgsc.bcm.edu	hg19	19	4792820	4792820	+	Silent	SNP	C	C	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	FEM1A	NM_018708	exon1	c.C954A	p.A318A	TGGGGCCCTTAAA	.	108.0	32.0	159.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF558	148156	hgsc.bcm.edu	hg19	19	8922694	8922694	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ZNF558	NM_144693	exon6	c.T472C	p.F158L	CTTTAAAACACTG	.	72.0	9.0	84.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF426	79088	hgsc.bcm.edu	hg19	19	9639297	9639297	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ZNF426	NM_024106	exon8	c.C1424T	p.P475L	TCATAGGGTTTTT	.	114.0	29.0	147.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
ICAM3	3385	hgsc.bcm.edu	hg19	19	10444569	10444569	+	Silent	SNP	T	T	A	rs369252388		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ICAM3	NM_002162	exon7	c.A1608T	p.T536T	TGCTTCTGTCGGC	.	121.0	24.0	162.0	0.0	.	29	.	.	.	weak	.	.	PASS	Atlas-SNP
CYP4F3	4051	hgsc.bcm.edu	hg19	19	15752256	15752256	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	CYP4F3	NM_001199209	exon2	c.C31G	p.L11V	CTGGGCCTTTGGC	.	64.0	16.0	84.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF506	440515	hgsc.bcm.edu	hg19	19	19905760	19905760	+	Silent	SNP	G	G	C	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ZNF506	NM_001099269	exon4	c.C936G	p.P312P	TTTGTAGGGTTTC	.	39.0	10.0	36.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
CYP2F1	1572	hgsc.bcm.edu	hg19	19	41627458	41627458	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	CYP2F1	NM_000774	exon5	c.C580T	p.R194C	GATGAGCGTCTGC	.	43.0	13.0	69.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
PSG9	5678	hgsc.bcm.edu	hg19	19	43772079	43772079	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	PSG9	NM_002784	exon2	c.G287A	p.S96N	CTTCCACTGTATG	.	149.0	44.0	171.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF836	162962	hgsc.bcm.edu	hg19	19	52660313	52660313	+	Missense_Mutation	SNP	A	A	T	rs186568049	bycluster;by1000genomes;alternate_allele	TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ZNF836	NM_001102657	exon5	c.T623A	p.L208H	TTCTCAAGTTGGG	.	177.0	48.0	180.0	0.0	.	158	.	.	.	alt	A|1.000;C|0.000	.	PASS	Atlas-SNP
ZIM2	23619	hgsc.bcm.edu	hg19	19	57286732	57286732	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ZIM2	NM_015363	exon11	c.G908A	p.G303E	TCCTTTCCTAGAG	.	88.0	21.0	112.0	0.0	.	511	.	.	.	none	.	.	PASS	Atlas-SNP
TIAM1	7074	hgsc.bcm.edu	hg19	21	32639267	32639267	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	TIAM1	NM_003253	exon5	c.C22T	p.H8Y	CTACATGTTGACT	.	24.0	7.0	50.0	0.0	.	522	.	.	.	none	.	.	PASS	Atlas-SNP
ASMTL	8623	hgsc.bcm.edu	hg19	X	1540611	1540611	+	Missense_Mutation	SNP	G	G	C	rs374756969	alternate_allele	TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ASMTL	NM_004192	exon9	c.C1185G	p.I395M	CTCTCGGATGGCA	.	288.0	119.0	561.0	1.0	.	56	.	.	.	alt	.	.	PASS	Atlas-SNP
ACOT9	23597	hgsc.bcm.edu	hg19	X	23723161	23723161	+	Silent	SNP	G	G	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ACOT9	NM_001037171	exon14	c.C1056T	p.I352I	AAACATGATGTCA	.	161.0	100.0	166.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
AR	367	hgsc.bcm.edu	hg19	X	66765167	66765167	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	AR	NM_000044	exon1	c.A179T	p.Q60L	AGCAGCAGCAGCA	.	77.0	7.0	72.0	0.0	.	249	.	.	.	none	.	.	PASS	Atlas-SNP
ZMAT1	84460	hgsc.bcm.edu	hg19	X	101152941	101152941	+	Silent	SNP	A	A	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ZMAT1	NM_001011657	exon5	c.T405A	p.I135I	CTGAGCAATAAGT	.	76.0	36.0	86.0	0.0	.	143	.	.	.	none	.	.	PASS	Atlas-SNP
PNCK	139728	hgsc.bcm.edu	hg19	X	152937048	152937048	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	PNCK	NM_001039582	exon6	c.C743G	p.A248G	TTCCCAGCCTGGA	.	66.0	39.0	101.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
ND4	0	hgsc.bcm.edu	hg19	MT	11411	11411	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	.	ENST00000361381	exon1	c.A652G	p.K218E	CTCCCTAAAGCCC	.	11.0	8.0	11.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	13844	13844	+	Missense_Mutation	SNP	A	A	G	rs28562381	bycluster;alternate_allele	TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	.	ENST00000361567	exon1	c.A1508G	p.D503G	CCCTAGACCTCAA	.	13.0	9.0	11.0	0.0	.	.	.	.	.	alt	.	.	PASS	Atlas-SNP
MCF2L	23263	hgsc.bcm.edu	hg19	13	113719317	113719318	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	MCF2L	NM_001112732	exon7	c.674_675insG	p.L225fs	.	.	76.0	16.0	106.0	0.0	.	182	.	0.210526	0	none	.	.	PASS	Atlas-Indel,Pindel
C12orf40	283461	hgsc.bcm.edu	hg19	12	40076521	40076521	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	C12orf40	NM_001031748	exon8	c.794delC	p.S265X	.	.	154.0	36.0	120.0	0.0	.	118	.	0.233766	0	none	.	.	PASS	Atlas-Indel,Pindel
REV1	51455	hgsc.bcm.edu	hg19	2	100019396	100019397	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	REV1	NM_016316	exon20	c.3340_3341insT	p.D1114_G1115delinsX	.	.	98.0	27.0	124.0	0.0	.	100	.	0.27551	0	none	.	.	PASS	Atlas-Indel,Pindel
PRDX6	9588	hgsc.bcm.edu	hg19	1	173454533	173454534	+	Frame_Shift_Ins	INS	-	-	AAAAAAA	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	PRDX6,bladder,carcinoma,0,2	PRDX6	NM_004905	exon3	c.286_287insAAAAAAA	p.E96fs	.	.	134.0	10.0	152.0	0.0	.	20	.	0.0746269	0	none	.	.	PASS	Atlas-Indel,Pindel
SETD2	29072	hgsc.bcm.edu	hg19	3	47165390	47165391	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	SETD2	NM_014159	exon3	c.736_737insT	p.V246fs	.	.	52.0	30.0	72.0	0.0	.	721	.	0.576923	0	none	.	.	PASS	Atlas-Indel,Pindel
SLC24A2	25769	hgsc.bcm.edu	hg19	9	19516367	19516367	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	SLC24A2	NM_020344	exon10	c.1771delC	p.H591fs	.	.	86.0	29.0	97.0	0.0	.	93	.	0.337209	0	none	.	.	PASS	Atlas-Indel,Pindel
SLC20A2	6575	hgsc.bcm.edu	hg19	8	42302170	42302170	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	SLC20A2	NM_001257180	exon6	c.725delT	p.I242fs	.	.	126.0	42.0	124.0	0.0	.	64	.	0.333333	0	none	.	.	PASS	Atlas-Indel,Pindel
MTMR14	64419	hgsc.bcm.edu	hg19	3	9724897	9724898	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	MTMR14	NM_001077525	exon10	c.933_934insA	p.L311fs	.	.	143.0	67.0	291.0	0.0	.	43	.	0.468531	0	none	.	.	PASS	Atlas-INDEL
PARP1	142	hgsc.bcm.edu	hg19	1	226555997	226555999	+	In_Frame_Del	DEL	GAG	GAG	-	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	GAG	GAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	PARP1	NM_001618	exon16	c.2179_2181del	p.727_727del	.	.	66.0	17.0	76.0	0.0	.	100	.	0.257576	0	none	.	.	PASS	Atlas-Indel,Pindel
MTMR14	64419	hgsc.bcm.edu	hg19	3	9724894	9724896	+	In_Frame_Del	DEL	CCT	CCT	-	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	CCT	CCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	MTMR14	NM_001077525	exon10	c.929_931del	p.310_311del	.	.	141.0	71.0	289.0	0.0	.	43	.	0.503546	0	none	.	.	PASS	Atlas-INDEL
ALS2	57679	hgsc.bcm.edu	hg19	2	202572613	202572623	+	Frame_Shift_Del	DEL	CGGGAATCTGA	CGGGAATCTGA	-	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	CGGGAATCTGA	CGGGAATCTGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ALS2	NM_020919	exon28	c.4373_4383del	p.1458_1461del	.	.	251.0	22.0	329.0	0.0	.	172	.	0.0876494	0	none	.	.	PASS	Atlas-INDEL
ALS2	57679	hgsc.bcm.edu	hg19	2	202572610	202572610	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ALS2	NM_020919	exon28	c.4386delT	p.S1462fs	.	.	256.0	24.0	328.0	0.0	.	172	.	0.09375	0	none	.	.	PASS	Atlas-INDEL
DLD	1738	hgsc.bcm.edu	hg19	7	107556127	107556127	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	DLD	NM_000108	exon9	c.860delG	p.G287fs	.	.	125.0	14.0	127.0	0.0	.	72	.	0.112	0	none	.	.	PASS	Atlas-INDEL
CDHR3	222256	hgsc.bcm.edu	hg19	7	105673047	105673047	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	CDHR3	NM_152750	exon19	c.2561delT	p.L854fs	.	.	170.0	37.0	175.0	0.0	.	153	.	0.217647	0	none	.	.	PASS	Atlas-Indel,Pindel
PLCZ1	89869	hgsc.bcm.edu	hg19	12	18876363	18876364	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	PLCZ1	NM_033123	exon4	c.249_250insA	p.N83fs	.	.	171.0	46.0	108.0	0.0	.	107	.	0.269	.	none	.	.	PASS	Pindel
MTMR14	64419	hgsc.bcm.edu	hg19	3	9724894	9724897	+	Frame_Shift_Del	DEL	CCTG	CCTG	-	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	CCTG	CCTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	MTMR14	NM_001077525	exon10	c.929_932del	p.310_311del	.	.	144.0	54.0	291.0	0.0	.	43	.	0.375	.	none	.	.	PASS	Pindel
AFF4	27125	hgsc.bcm.edu	hg19	5	132224787	132224791	+	Frame_Shift_Del	DEL	GCTTT	GCTTT	-	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	GCTTT	GCTTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	AFF4	NM_014423	exon14	c.2713_2717del	p.905_906del	.	.	459.0	23.0	429.0	0.0	.	120	.	0.050	.	none	.	.	PASS	Pindel
ALS2	57679	hgsc.bcm.edu	hg19	2	202572610	202572623	+	Frame_Shift_Del	DEL	GATCGGGAATCTGA	GATCGGGAATCTGA	-	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	GATCGGGAATCTGA	GATCGGGAATCTGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	ALS2	NM_020919	exon28	c.4373_4386del	p.1458_1462del	.	.	274.0	32.0	339.0	0.0	.	172	.	0.117	.	none	.	.	PASS	Pindel
DLD	1738	hgsc.bcm.edu	hg19	7	107556131	107556131	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	DLD	NM_000108	exon9	c.864delA	p.K288fs	.	.	122.0	12.0	116.0	0.0	.	72	.	0.098	.	none	.	.	PASS	Pindel
HOXB4	3214	hgsc.bcm.edu	hg19	17	46655633	46655634	+	In_Frame_Ins	INS	-	-	CTT	novel		TCGA-B1-A656-01A-11D-A31X-10	TCGA-B1-A656-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	2ac9225b-09f2-40d9-8d53-3287fa4779b7	1b3cf7d6-8f3d-472a-958f-0e800ef04ce3	.	HOXB4	NM_024015	exon1	c.49_50insAAG	p.F17delinsKF	.	.	188.0	36.0	166.0	0.0	.	16	.	0.191	.	none	.	.	PASS	Pindel
