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
SLC6A17	388662	hgsc.bcm.edu	hg19	1	110709565	110709565	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	SLC6A17	NM_001010898	exon2	c.G14A	p.S5N	AGAACAGCAAAGT	.	45.0	11.0	45.0	0.0	.	86	.	.	.	none	.	.	PASS	Atlas-SNP
ELF3	1999	hgsc.bcm.edu	hg19	1	201984378	201984378	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	ELF3	NM_001114309	exon9	c.G1043C	p.R348P	ATGGCCGGCGACT	.	69.0	15.0	100.0	0.0	.	92	.	.	.	none	.	.	PASS	Atlas-SNP
NID1	4811	hgsc.bcm.edu	hg19	1	236208870	236208870	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	NID1	NM_002508	exon3	c.C639G	p.N213K	AACTTGGTTGTTT	.	99.0	4.0	100.0	0.0	.	196	.	.	.	none	.	.	PASS	Atlas-SNP
FAM161A	84140	hgsc.bcm.edu	hg19	2	62066806	62066806	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	FAM161A	NM_032180	exon3	c.C1333T	p.H445Y	ACTTGTGTTCTGA	.	170.0	52.0	179.0	0.0	.	200	.	.	.	none	.	.	PASS	Atlas-SNP
LMAN2L	81562	hgsc.bcm.edu	hg19	2	97373520	97373520	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	LMAN2L	NM_001142292	exon8	c.A868G	p.T290A	CTGGGGTTCTCTC	.	154.0	37.0	167.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	hg19	2	170072853	170072853	+	Silent	SNP	A	A	G	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	LRP2	NM_004525	exon35	c.T5736C	p.T1912T	AAAGAGAGTTTTC	.	105.0	41.0	102.0	0.0	.	751	.	.	.	none	.	.	PASS	Atlas-SNP
GOLGA4	2803	hgsc.bcm.edu	hg19	3	37340849	37340849	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	GOLGA4	NM_001172713	exon10	c.T1139C	p.L380P	AACAGCTTGAACA	.	78.0	41.0	72.0	0.0	.	173	.	.	.	none	.	.	PASS	Atlas-SNP
MORC1	27136	hgsc.bcm.edu	hg19	3	108788509	108788509	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	MORC1	NM_014429	exon9	c.A785T	p.K262I	AGATGTTTAGTTT	.	156.0	42.0	119.0	0.0	.	211	.	.	.	none	.	.	PASS	Atlas-SNP
SLC30A5	64924	hgsc.bcm.edu	hg19	5	68399835	68399835	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	SLC30A5	NM_024055	exon4	c.A320G	p.K107R	AAGACAAAAAGTT	.	30.0	10.0	31.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
F2RL2	2151	hgsc.bcm.edu	hg19	5	75913735	75913735	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	F2RL2	NM_004101	exon2	c.T797C	p.L266S	AATGCCAAGGAGA	.	59.0	14.0	45.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
BHMT	635	hgsc.bcm.edu	hg19	5	78415082	78415082	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	BHMT	NM_001713	exon3	c.T167C	p.V56A	TCCCAGTTCGCCA	.	125.0	41.0	151.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHB3	56132	hgsc.bcm.edu	hg19	5	140481178	140481178	+	Silent	SNP	T	T	C	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	PCDHB3	NM_018937	exon1	c.T945C	p.Y315Y	TAGTTATGAAGTC	.	86.0	32.0	98.0	0.0	.	208	.	.	.	none	.	.	PASS	Atlas-SNP
TENM2	57451	hgsc.bcm.edu	hg19	5	167674296	167674296	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	.	NM_001122679	exon27	c.C6325A	p.R2109S	CTCTACCGCTATG	.	185.0	57.0	182.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
PFN3	345456	hgsc.bcm.edu	hg19	5	176827191	176827191	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	PFN3	NM_001029886	exon1	c.A387G	p.I129M	CCCGCGTATGAGT	.	52.0	14.0	39.0	0.0	.	4	.	.	.	none	.	.	PASS	Atlas-SNP
VARS2	57176	hgsc.bcm.edu	hg19	6	30893383	30893383	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	VARS2	NM_001167734	exon28	c.G2938C	p.G980R	CCCCTGGGCACCC	.	41.0	9.0	58.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
TTBK1	84630	hgsc.bcm.edu	hg19	6	43226956	43226956	+	Silent	SNP	C	C	G	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	TTBK1	NM_032538	exon11	c.C1197G	p.V399V	TGAAGTCTGGGAG	.	104.0	26.0	100.0	0.0	.	124	.	.	.	none	.	.	PASS	Atlas-SNP
GPR110	266977	hgsc.bcm.edu	hg19	6	46977043	46977043	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	GPR110	NM_153840	exon11	c.C2128T	p.P710S	TGAGAGGGCACCC	.	56.0	16.0	54.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
C6orf170	221322	hgsc.bcm.edu	hg19	6	121576521	121576521	+	Silent	SNP	T	T	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	C6orf170	NM_152730	exon17	c.A1971T	p.V657V	ACCCTCTACTGGA	.	116.0	43.0	118.0	0.0	.	146	.	.	.	none	.	.	PASS	Atlas-SNP
HIVEP2	3097	hgsc.bcm.edu	hg19	6	143091819	143091819	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	HIVEP2	NM_006734	exon5	c.A4057G	p.I1353V	GAGAAATGCTTGT	.	96.0	29.0	90.0	0.0	.	225	.	.	.	none	.	.	PASS	Atlas-SNP
CADPS2	93664	hgsc.bcm.edu	hg19	7	122269335	122269335	+	Silent	SNP	A	A	G	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	CADPS2	NM_001167940	exon4	c.T834C	p.D278D	CCGGCCATCAAGT	.	33.0	6.0	35.0	0.0	.	116	.	.	.	none	.	.	PASS	Atlas-SNP
NUP205	23165	hgsc.bcm.edu	hg19	7	135276257	135276257	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	NUP205	NM_015135	exon11	c.T1533G	p.I511M	TTATATTCCTTAT	.	130.0	46.0	150.0	0.0	.	198	.	.	.	none	.	.	PASS	Atlas-SNP
SMC2	10592	hgsc.bcm.edu	hg19	9	106862707	106862707	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	SMC2	NM_006444	exon7	c.T629C	p.L210S	AAAAATTAAAAGA	.	118.0	35.0	142.0	0.0	.	127	.	.	.	none	.	.	PASS	Atlas-SNP
PTGR1	22949	hgsc.bcm.edu	hg19	9	114359672	114359672	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	PTGR1	NM_001146108	exon2	c.A31C	p.K11Q	AGTGCTTCTTCAG	.	35.0	15.0	46.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
C10orf62	414157	hgsc.bcm.edu	hg19	10	99349694	99349694	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	C10orf62	NM_001009997	exon1	c.T40A	p.S14T	GAAACCTCTGAGT	.	97.0	7.0	117.0	0.0	.	14	.	.	.	none	.	.	PASS	Atlas-SNP
ST5	6764	hgsc.bcm.edu	hg19	11	8751785	8751785	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	ST5	NM_005418	exon6	c.C1052T	p.P351L	TCTGGGGGTGGGC	.	109.0	25.0	125.0	0.0	.	85	.	.	.	none	.	.	PASS	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	hg19	11	62290316	62290316	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	AHNAK	NM_001620	exon5	c.G11573A	p.G3858D	TTGGGACCTTTCA	.	412.0	35.0	422.0	0.0	.	532	.	.	.	none	.	.	PASS	Atlas-SNP
TUT1	64852	hgsc.bcm.edu	hg19	11	62346405	62346405	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	TUT1	NM_022830	exon5	c.A902G	p.D301G	TGTGAATCTGGAG	.	70.0	19.0	76.0	0.0	.	122	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGEF12	23365	hgsc.bcm.edu	hg19	11	120336044	120336044	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	ARHGEF12	NM_015313	exon28	c.G2712T	p.K904N	GAAAAAGGATTCT	.	101.0	30.0	118.0	0.0	.	133	.	.	.	none	.	.	PASS	Atlas-SNP
MCRS1	10445	hgsc.bcm.edu	hg19	12	49956786	49956786	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	MCRS1,NS,carcinoma,0,1	MCRS1	NM_001012300	exon7	c.C842G	p.T281R	TTACCTGTCTGGT	.	28.0	2.0	19.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
MON2	23041	hgsc.bcm.edu	hg19	12	62972277	62972277	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	MON2	NM_015026	exon31	c.G4567A	p.D1523N	AATATTGATGTCG	.	47.0	9.0	46.0	0.0	.	160	.	.	.	none	.	.	PASS	Atlas-SNP
NAP1L1	4673	hgsc.bcm.edu	hg19	12	76444427	76444427	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	NAP1L1	NM_004537	exon12	c.G943A	p.D315N	CAGCATCATCATC	.	82.0	27.0	85.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
PTPN11	5781	hgsc.bcm.edu	hg19	12	112892458	112892458	+	Silent	SNP	T	T	C	rs78376169	bycluster	TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	PTPN11,NS,carcinoma,0,2	PTPN11	NM_080601	exon5	c.T616C	p.L206L	GAAACATTGGGTA	.	63.0	3.0	63.0	0.0	.	623	.	.	.	weak	.	.	PASS	Atlas-SNP
HMGB1	3146	hgsc.bcm.edu	hg19	13	31036826	31036826	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	HMGB1	NM_002128	exon4	c.C320T	p.S107F	TACTCAGAGCAGA	.	99.0	23.0	108.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
ELF1	1997	hgsc.bcm.edu	hg19	13	41515309	41515309	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	ELF1	NM_172373	exon8	c.C1004T	p.P335L	ACCCCTGGACTTG	.	211.0	46.0	235.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
GPHN	10243	hgsc.bcm.edu	hg19	14	67389425	67389425	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	GPHN	NM_001024218	exon7	c.G499C	p.D167H	GCCATTGACCTTT	.	221.0	63.0	255.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
ATG2B	55102	hgsc.bcm.edu	hg19	14	96761860	96761860	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	ATG2B	NM_018036	exon35	c.T5177A	p.L1726H	GCAGAAAGACTTG	.	112.0	36.0	134.0	0.0	.	169	.	.	.	none	.	.	PASS	Atlas-SNP
ITGAX	3687	hgsc.bcm.edu	hg19	16	31371300	31371300	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	ITGAX	NM_000887	exon7	c.G621A	p.R207R	ATTCAGGCGCAGC	.	223.0	108.0	136.0	0.0	.	198	.	.	.	none	.	.	PASS	Atlas-SNP
SLC13A5	284111	hgsc.bcm.edu	hg19	17	6606332	6606332	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	SLC13A5	NM_001143838	exon5	c.A673C	p.T225P	TCCCGGTCAGGGT	.	141.0	39.0	123.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
PIK3R5	23533	hgsc.bcm.edu	hg19	17	8812455	8812455	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	PIK3R5	NM_001142633	exon3	c.T140C	p.L47P	CTGACCAGCTCCT	.	26.0	4.0	36.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA0100	9703	hgsc.bcm.edu	hg19	17	26948415	26948415	+	Splice_Site	SNP	A	A	G	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	KIAA0100	NM_014680	exon28	c.5059+2T>C	.	GGGCTGACCTGTG	.	283.0	62.0	252.0	0.0	.	175	.	.	.	none	.	.	PASS	Atlas-SNP
HID1	283987	hgsc.bcm.edu	hg19	17	72954436	72954436	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	.	NM_030630	exon11	c.G1378C	p.D460H	GCAGGTCGGCGTG	.	48.0	5.0	28.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ITGB4	3691	hgsc.bcm.edu	hg19	17	73752809	73752809	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	ITGB4	NM_000213	exon37	c.C4922T	p.P1641L	GCACTCCCAGTGC	.	124.0	29.0	112.0	0.0	.	165	.	.	.	none	.	.	PASS	Atlas-SNP
GADD45B	4616	hgsc.bcm.edu	hg19	19	2477582	2477582	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	GADD45B	NM_015675	exon4	c.T466A	p.S156T	TACATCTCTCTTC	.	39.0	13.0	27.0	0.0	.	6	.	.	.	none	.	.	PASS	Atlas-SNP
S1PR4	8698	hgsc.bcm.edu	hg19	19	3179456	3179456	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	S1PR4	NM_003775	exon1	c.C666T	p.L222L	GGGCCTCTATGGG	.	263.0	85.0	245.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
ZFP14	57677	hgsc.bcm.edu	hg19	19	36831480	36831480	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	ZFP14	NM_020917	exon5	c.C1248T	p.S416S	ATGAATGCTCTGG	.	163.0	53.0	142.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
ZFP14	57677	hgsc.bcm.edu	hg19	19	36831481	36831481	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	ZFP14	NM_020917	exon5	c.G1247A	p.S416N	TGAATGCTCTGGT	.	164.0	53.0	142.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
BCAM	4059	hgsc.bcm.edu	hg19	19	45322968	45322968	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	BCAM,middle_lobe,carcinoma,0,1	BCAM	NM_001013257	exon13	c.G1748T	p.R583L	AGCGGCGGGAGAA	.	39.0	18.0	42.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
HRC	3270	hgsc.bcm.edu	hg19	19	49657763	49657763	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	HRC,NS,carcinoma,0,1	HRC	NM_002152	exon1	c.A732T	p.E244D	ATCTTCTTCATGG	.	33.0	2.0	30.0	1.0	.	85	.	.	.	none	.	.	PASS	Atlas-SNP
PTPRA	5786	hgsc.bcm.edu	hg19	20	3016279	3016279	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	PTPRA	NM_002836	exon25	c.G1969T	p.D657Y	TATGGAGATATTA	.	26.0	12.0	40.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
PARD6B	84612	hgsc.bcm.edu	hg19	20	49366607	49366607	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	PARD6B	NM_032521	exon3	c.T701C	p.M234T	CAGACATGATGAT	.	156.0	52.0	153.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
EMID1	129080	hgsc.bcm.edu	hg19	22	29627008	29627008	+	Splice_Site	SNP	G	G	T	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	EMID1	NM_133455	exon6	c.466-1G>T	.	TCTTCAGATGACC	.	103.0	27.0	85.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
SBF1	6305	hgsc.bcm.edu	hg19	22	50885659	50885659	+	Missense_Mutation	SNP	G	G	C	rs375012426	alternate_allele	TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	SBF1	NM_002972	exon41	c.C5594G	p.T1865R	CGACGCGTTGTCT	.	56.0	13.0	53.0	0.0	.	211	.	.	.	alt	.	.	PASS	Atlas-SNP
EIF2S3	1968	hgsc.bcm.edu	hg19	X	24089815	24089815	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	EIF2S3	NM_001415	exon10	c.C1153T	p.R385C	GGTGTACGCACTG	.	46.0	30.0	68.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
KDM6A	7403	hgsc.bcm.edu	hg19	X	44949021	44949021	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	KDM6A	NM_021140	exon25	c.G3582A	p.W1194X	TTGGTGGCCCAAT	.	37.0	29.0	47.0	0.0	.	274	.	.	.	none	.	.	PASS	Atlas-SNP
CYTB	0	hgsc.bcm.edu	hg19	MT	14760	14760	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	.	ENST00000361789	exon1	c.G14A	p.R5H	CAATACGCAAAAC	.	40.0	16.0	37.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
NPS	594857	hgsc.bcm.edu	hg19	10	129350829	129350829	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	NPS	NM_001030013	exon3	c.195delG	p.M65fs	.	.	357.0	50.0	430.0	0.0	.	14	.	0.140056	0	none	.	.	PASS	Atlas-INDEL
ZNF543	125919	hgsc.bcm.edu	hg19	19	57839185	57839185	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	ZNF543	NM_213598	exon4	c.354delA	p.L118fs	.	.	69.0	15.0	69.0	0.0	.	61	.	0.217391	0	none	.	.	PASS	Atlas-INDEL
RGS20	8601	hgsc.bcm.edu	hg19	8	54764571	54764572	+	Frame_Shift_Del	DEL	AT	AT	-	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	AT	AT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	RGS20	NM_170587	exon1	c.111_112del	p.37_38del	.	.	119.0	38.0	126.0	0.0	.	51	.	0.319328	0	none	.	.	PASS	Atlas-INDEL
HMGB1	3146	hgsc.bcm.edu	hg19	13	31036836	31036836	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BQ-5886-01A-11D-1589-08	TCGA-BQ-5886-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	74be0abf-970a-477d-aa8c-7982e32b739f	9d0a86f4-1735-4a01-8c16-37b05d7bc326	.	HMGB1	NM_002128	exon4	c.311delT	p.L104fs	.	.	82.0	19.0	102.0	0.0	.	21	.	0.231707	0	none	.	.	PASS	Atlas-INDEL