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
CHD5	26038	hgsc.bcm.edu	hg19	1	6204188	6204188	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	CHD5	NM_015557	exon12	c.C1830T	p.Y610Y	GATCAGGTAGTGC	.	169.0	82.0	187.0	0.0	.	267	.	.	.	none	.	.	PASS	Atlas-SNP
ARID1A	8289	hgsc.bcm.edu	hg19	1	27057775	27057775	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ARID1A	NM_006015	exon3	c.C1483T	p.H495Y	ACCCCTCATGCCC	.	446.0	61.0	443.0	0.0	.	842	.	.	.	none	.	.	PASS	Atlas-SNP
C1orf177	163747	hgsc.bcm.edu	hg19	1	55272686	55272686	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	C1orf177	NM_001110533	exon2	c.T122C	p.V41A	CTGCTGTTTATCC	.	240.0	97.0	304.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
L1TD1	54596	hgsc.bcm.edu	hg19	1	62672679	62672679	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	L1TD1	NM_001164835	exon4	c.G379C	p.G127R	AAAATAGGTGATG	.	96.0	46.0	118.0	0.0	.	114	.	.	.	none	.	.	PASS	Atlas-SNP
VANGL1	81839	hgsc.bcm.edu	hg19	1	116202267	116202267	+	Missense_Mutation	SNP	G	G	C	rs143990097	alternate_allele	TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	VANGL1	NM_001172411	exon3	c.G77C	p.R26T	GGGAAAGAACTAG	.	207.0	9.0	199.0	0.0	.	65	.	.	.	alt	G|1.000;A|0.000	.	PASS	Atlas-SNP
NTRK1	4914	hgsc.bcm.edu	hg19	1	156849153	156849153	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	NTRK1	NM_002529	exon15	c.G2045A	p.R682H	ATTACCGTGTAAG	.	79.0	42.0	74.0	0.0	.	287	.	.	.	none	.	.	PASS	Atlas-SNP
GLRX2	51022	hgsc.bcm.edu	hg19	1	193074704	193074704	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	GLRX2	NM_016066	exon1	c.C65T	p.A22V	GCGAGTGCCACCC	.	31.0	14.0	33.0	0.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
NEK7	140609	hgsc.bcm.edu	hg19	1	198266319	198266319	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	NEK7	NM_133494	exon9	c.G747C	p.K249N	TAAGAAGATAGAA	.	188.0	84.0	206.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
GDF7	151449	hgsc.bcm.edu	hg19	2	20871056	20871056	+	Silent	SNP	C	C	T	rs376857749	alternate_allele	TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	GDF7	NM_182828	exon2	c.C1224T	p.D408D	ACCAGACGCGGCG	.	15.0	11.0	39.0	0.0	.	21	.	.	.	alt	.	.	PASS	Atlas-SNP
AUP1	550	hgsc.bcm.edu	hg19	2	74756587	74756587	+	Silent	SNP	G	G	C	rs376231592		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	AUP1	NM_181575	exon2	c.C90G	p.L30L	CGCGTAGAGCAGC	.	10.0	6.0	5.0	0.0	.	29	.	.	.	weak	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179401833	179401833	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	TTN	NM_001267550	exon356	c.G100003A	p.E33335K	CCCCCTCCTTGGC	.	79.0	15.0	27.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179452053	179452053	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	TTN	NM_001267550	exon307	c.G63885A	p.G21295G	TTGGCTCCCACCG	.	92.0	6.0	29.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
CPO	130749	hgsc.bcm.edu	hg19	2	207833968	207833968	+	Silent	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	CPO	NM_173077	exon9	c.G933C	p.L311L	TGAGCTGAGGGAC	.	81.0	36.0	89.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
ABCA12	26154	hgsc.bcm.edu	hg19	2	215840568	215840568	+	Silent	SNP	A	A	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ABCA12	NM_173076	exon34	c.T5322C	p.Y1774Y	CTCTGGATAACTG	.	87.0	31.0	130.0	0.0	.	368	.	.	.	none	.	.	PASS	Atlas-SNP
TMPPE	643853	hgsc.bcm.edu	hg19	3	33135655	33135655	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	TMPPE,colon,carcinoma,-2,1	TMPPE	NM_001039770	exon2	c.G33A	p.A11A	GGCCTTCGCGCCT	.	82.0	8.0	91.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
CTNNB1	1499	hgsc.bcm.edu	hg19	3	41274905	41274905	+	Silent	SNP	C	C	T	rs74692094	bycluster;by1000genomes;alternate_allele	TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	CTNNB1	NM_001098209	exon8	c.C1155T	p.L385L	GACTCTCAGGAAT	.	126.0	47.0	103.0	0.0	.	4904	.	.	.	alt	C|0.999;A|0.001	.	PASS	Atlas-SNP
TMF1	7110	hgsc.bcm.edu	hg19	3	69101211	69101211	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	TMF1	NM_007114	exon1	c.C27T	p.L9L	GCTGGAGAGCTGG	.	133.0	57.0	129.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
MAPK10	5602	hgsc.bcm.edu	hg19	4	86950416	86950416	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	MAPK10	NM_002753	exon13	c.A1186G	p.K396E	CTTCCTTGTAGAT	.	79.0	41.0	110.0	0.0	.	106	.	.	.	none	.	.	PASS	Atlas-SNP
LRBA	987	hgsc.bcm.edu	hg19	4	151827110	151827110	+	Silent	SNP	A	A	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	LRBA	NM_006726	exon13	c.T1635A	p.L545L	AAGTTCAAGTACT	.	82.0	37.0	76.0	0.0	.	253	.	.	.	none	.	.	PASS	Atlas-SNP
ASIC5	51802	hgsc.bcm.edu	hg19	4	156763435	156763435	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	.	NM_017419	exon6	c.C933T	p.S311S	AGAAGTGCTGTAG	.	117.0	64.0	106.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ASIC5	51802	hgsc.bcm.edu	hg19	4	156763436	156763436	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	.	NM_017419	exon6	c.G932A	p.S311N	GAAGTGCTGTAGC	.	112.0	64.0	104.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
HMGB2	3148	hgsc.bcm.edu	hg19	4	174254775	174254775	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	HMGB2	NM_001130689	exon1	c.C26T	p.P9L	CCCCGCGGCTTGT	.	87.0	43.0	99.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
PRLR	5618	hgsc.bcm.edu	hg19	5	35070231	35070231	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PRLR	NM_000949	exon7	c.C680G	p.P227R	CCACTAGGTATCT	.	49.0	19.0	66.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
SPOCK1	6695	hgsc.bcm.edu	hg19	5	136328174	136328174	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SPOCK1	NM_004598	exon7	c.C705T	p.G235G	CTTACTGCCTTGG	.	122.0	48.0	163.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
KDM3B	51780	hgsc.bcm.edu	hg19	5	137715373	137715373	+	Silent	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	KDM3B	NM_016604	exon5	c.T681C	p.R227R	CACTCGTCTTATG	.	103.0	37.0	105.0	0.0	.	177	.	.	.	none	.	.	PASS	Atlas-SNP
PSD2	84249	hgsc.bcm.edu	hg19	5	139197069	139197069	+	Silent	SNP	C	C	T	rs142589356		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PSD2	NM_032289	exon5	c.C1020T	p.N340N	CAGCAACGAGTTT	.	62.0	21.0	68.0	0.0	.	88	.	.	.	weak	C|1.000;T|0.000	0.000	PASS	Atlas-SNP
PCDHB15	56121	hgsc.bcm.edu	hg19	5	140625417	140625417	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PCDHB15	NM_018935	exon1	c.G271C	p.D91H	AAGCTGGACCGGG	.	99.0	8.0	127.0	0.0	.	138	.	.	.	none	.	.	PASS	Atlas-SNP
F13A1	2162	hgsc.bcm.edu	hg19	6	6196094	6196094	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	F13A1	NM_000129	exon10	c.C1241T	p.S414L	TGAACCGAGGCGG	.	37.0	10.0	37.0	0.0	.	135	.	.	.	none	.	.	PASS	Atlas-SNP
GFRAL	389400	hgsc.bcm.edu	hg19	6	55223928	55223928	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	GFRAL,NS,carcinoma,0,1	GFRAL	NM_207410	exon6	c.C944T	p.S315L	GAAAATCATGTTT	.	85.0	9.0	88.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
AIM1	202	hgsc.bcm.edu	hg19	6	106968949	106968949	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	AIM1	NM_001624	exon2	c.A2642T	p.E881V	CGACTGAGGGTGC	.	142.0	62.0	127.0	0.0	.	161	.	.	.	none	.	.	PASS	Atlas-SNP
CTGF	1490	hgsc.bcm.edu	hg19	6	132271489	132271489	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	CTGF	NM_001901	exon3	c.G484A	p.E162K	ACTCCTCGCAGCA	.	185.0	79.0	170.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
BCLAF1	9774	hgsc.bcm.edu	hg19	6	136596669	136596669	+	Splice_Site	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	BCLAF1	NM_014739	exon7	c.1852+1G>A	.	AGCATACCTTTAA	.	175.0	8.0	143.0	0.0	.	203	.	.	.	none	.	.	PASS	Atlas-SNP
SASH1	23328	hgsc.bcm.edu	hg19	6	148808752	148808752	+	Silent	SNP	C	C	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SASH1	NM_015278	exon8	c.C630G	p.L210L	ACAGCTCAAGGAA	.	194.0	68.0	221.0	0.0	.	123	.	.	.	none	.	.	PASS	Atlas-SNP
TNRC18	84629	hgsc.bcm.edu	hg19	7	5352384	5352384	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	TNRC18_ENST00000430969,colon,carcinoma,0,3	TNRC18	NM_001080495	exon27	c.C8138T	p.S2713L	TGGGCCGAGGGCC	.	38.0	7.0	39.0	0.0	.	311	.	.	.	none	.	.	PASS	Atlas-SNP
TNS3	64759	hgsc.bcm.edu	hg19	7	47440438	47440438	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	TNS3	NM_022748	exon14	c.C797T	p.A266V	TGCACAGCCCCAG	.	92.0	38.0	95.0	0.0	.	140	.	.	.	none	.	.	PASS	Atlas-SNP
PPP1R9A	55607	hgsc.bcm.edu	hg19	7	94915545	94915545	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PPP1R9A	NM_001166160	exon18	c.C3637A	p.P1213T	TTCAGTCCCAGCA	.	64.0	23.0	55.0	0.0	.	264	.	.	.	none	.	.	PASS	Atlas-SNP
SLC35G5	83650	hgsc.bcm.edu	hg19	8	11188670	11188670	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	.	NM_054028	exon1	c.C55T	p.P19S	TCGCCGCCCTCCG	.	72.0	28.0	82.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ANK1	286	hgsc.bcm.edu	hg19	8	41577342	41577342	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ANK1	NM_001142446	exon10	c.G1043A	p.G348E	TGGTCTCCCTGAG	.	142.0	57.0	157.0	0.0	.	497	.	.	.	none	.	.	PASS	Atlas-SNP
SPIN1	10927	hgsc.bcm.edu	hg19	9	91083448	91083448	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SPIN1	NM_006717	exon5	c.G517C	p.D173H	GAGAAAGACCCTG	.	132.0	11.0	173.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
SPAG6	9576	hgsc.bcm.edu	hg19	10	22676767	22676767	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SPAG6	NM_172242	exon6	c.G694T	p.A232S	CTTTCAGCTCTCA	.	80.0	27.0	129.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
PIP4K2A	5305	hgsc.bcm.edu	hg19	10	23003187	23003187	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PIP4K2A	NM_005028	exon1	c.C69T	p.F23F	CGCTACGAAGTGC	.	48.0	23.0	63.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF485	220992	hgsc.bcm.edu	hg19	10	44112496	44112496	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ZNF485	NM_145312	exon5	c.C1005T	p.F335F	ATCTTTCAGGTAT	.	119.0	46.0	145.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
PCDH15	65217	hgsc.bcm.edu	hg19	10	55583106	55583106	+	Silent	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PCDH15	NM_001142763	exon35	c.C4401G	p.L1467L	ATGGTAGAGAAGG	.	79.0	12.0	104.0	0.0	.	1715	.	.	.	none	.	.	PASS	Atlas-SNP
FAM178A	55719	hgsc.bcm.edu	hg19	10	102683799	102683799	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	FAM178A	NM_001136123	exon5	c.C1041T	p.S347S	GAAAAGCACAAGA	.	50.0	22.0	76.0	0.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
NFKB2	4791	hgsc.bcm.edu	hg19	10	104161522	104161522	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	NFKB2	NM_001077494	exon21	c.G2314C	p.D772H	CTTGGTGATACAG	.	43.0	9.0	37.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
OR51B6	390058	hgsc.bcm.edu	hg19	11	5373545	5373545	+	Missense_Mutation	SNP	G	G	T	rs138981931	alternate_allele	TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	OR51B6	NM_001004750	exon1	c.G808T	p.V270F	CATGTCGTTCACA	.	195.0	83.0	220.0	0.0	.	53	.	.	.	alt	G|1.000;A|0.000	.	PASS	Atlas-SNP
TUB	7275	hgsc.bcm.edu	hg19	11	8120419	8120419	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	TUB	NM_003320	exon10	c.C1278G	p.C426W	TGTGTGCTACGTG	.	101.0	37.0	99.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
ELP4	26610	hgsc.bcm.edu	hg19	11	31561263	31561263	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ELP4	NM_019040	exon3	c.A314G	p.E105G	TGGCAGAAGGAAT	.	211.0	85.0	271.0	1.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
OR4A16	81327	hgsc.bcm.edu	hg19	11	55111508	55111508	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	OR4A16	NM_001005274	exon1	c.C832A	p.L278I	ATCACACTCATGT	.	93.0	28.0	87.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
MAGOHB	55110	hgsc.bcm.edu	hg19	12	10766047	10766047	+	Silent	SNP	G	G	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	MAGOHB	NM_018048	exon1	c.C85A	p.R29R	CCGGCCGAAATTC	.	110.0	9.0	96.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
CIT	11113	hgsc.bcm.edu	hg19	12	120173153	120173153	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	CIT	NM_001206999	exon25	c.G2968A	p.D990N	CCAGGTCTGTGAT	.	110.0	43.0	108.0	0.0	.	535	.	.	.	none	.	.	PASS	Atlas-SNP
OASL	8638	hgsc.bcm.edu	hg19	12	121465530	121465530	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	OASL	NM_003733	exon4	c.G748T	p.E250X	CGTCTTCTTCAGT	.	73.0	26.0	84.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
C14orf93	60686	hgsc.bcm.edu	hg19	14	23467861	23467861	+	Silent	SNP	A	A	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	C14orf93	NM_021944	exon2	c.T372G	p.P124P	AGGCCCAGGCTCC	.	53.0	23.0	98.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
SOS2	6655	hgsc.bcm.edu	hg19	14	50605361	50605361	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SOS2	NM_006939	exon18	c.C2927T	p.P976L	CAGTAAGGCTGAT	.	110.0	46.0	161.0	0.0	.	195	.	.	.	none	.	.	PASS	Atlas-SNP
AK7	122481	hgsc.bcm.edu	hg19	14	96917831	96917831	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	AK7	NM_152327	exon10	c.G1022A	p.R341Q	ATATTCGATGGGC	.	78.0	29.0	78.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGAP11A	9824	hgsc.bcm.edu	hg19	15	32929514	32929514	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ARHGAP11A	NM_014783	exon12	c.C2540T	p.S847F	TTAATTCTTTGTT	.	148.0	6.0	160.0	0.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
MAP2K5	5607	hgsc.bcm.edu	hg19	15	67956981	67956981	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	MAP2K5_ENST00000178640,NS,carcinoma,0,2	MAP2K5	NM_145160	exon13	c.G845C	p.R282T	TACATAGAGGTAT	.	93.0	8.0	105.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
AGBL1	123624	hgsc.bcm.edu	hg19	15	87217502	87217502	+	Splice_Site	SNP	A	A	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	AGBL1,NS,carcinoma,0,1	AGBL1	NM_152336	exon22	c.2920-2A>G	.	ACTGGCAGGGTCT	.	18.0	8.0	16.0	0.0	.	151	.	.	.	none	.	.	PASS	Atlas-SNP
SRRM2	23524	hgsc.bcm.edu	hg19	16	2816146	2816146	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SRRM2	NM_016333	exon11	c.C5617G	p.H1873D	GCCACTCACCGGC	.	73.0	22.0	88.0	0.0	.	263	.	.	.	none	.	.	PASS	Atlas-SNP
SRRM2	23524	hgsc.bcm.edu	hg19	16	2818196	2818196	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SRRM2	NM_016333	exon11	c.C7667G	p.S2556C	CCTCCTCTGGCTC	.	42.0	15.0	44.0	0.0	.	263	.	.	.	none	.	.	PASS	Atlas-SNP
LONP2	83752	hgsc.bcm.edu	hg19	16	48385617	48385617	+	Silent	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	LONP2	NM_031490	exon15	c.T2463C	p.F821F	AAGTTTTGTCACA	.	89.0	34.0	100.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	hg19	16	72828734	72828734	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ZFHX3	NM_006885	exon9	c.G7847A	p.R2616K	AGCTTCCTCTTGA	.	461.0	188.0	533.0	1.0	.	404	.	.	.	none	.	.	PASS	Atlas-SNP
GEMIN4	50628	hgsc.bcm.edu	hg19	17	649344	649344	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	GEMIN4	NM_015721	exon2	c.G1939C	p.E647Q	CTGGCTCAAGAAG	.	84.0	10.0	82.0	0.0	.	116	.	.	.	none	.	.	PASS	Atlas-SNP
ADPRM	56985	hgsc.bcm.edu	hg19	17	10608559	10608559	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	.	NM_020233	exon2	c.C316T	p.H106Y	GTTCATCATACAT	.	115.0	18.0	106.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
MYO18A	399687	hgsc.bcm.edu	hg19	17	27430634	27430634	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	MYO18A	NM_078471	exon21	c.T3490A	p.C1164S	CCATGCAGCAGCT	.	32.0	16.0	61.0	0.0	.	217	.	.	.	none	.	.	PASS	Atlas-SNP
KCNJ16	3773	hgsc.bcm.edu	hg19	17	68129360	68129360	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	KCNJ16	NM_001270422	exon6	c.G1132A	p.A378T	GCAGTTGCCATTG	.	84.0	43.0	80.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
YES1	7525	hgsc.bcm.edu	hg19	18	756694	756694	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	YES1	NM_005433	exon2	c.C134T	p.S45F	GCTGAAGATGACG	.	235.0	33.0	289.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
NEDD4L	23327	hgsc.bcm.edu	hg19	18	55996285	55996285	+	Silent	SNP	C	C	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	NEDD4L	NM_015277	exon10	c.C739A	p.R247R	GCACACCGGCGCT	.	44.0	4.0	41.0	0.0	.	126	.	.	.	none	.	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	19	9087506	9087506	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	MUC16	NM_024690	exon1	c.G4309A	p.D1437N	GGACATCAGAAGT	.	149.0	12.0	130.0	0.0	.	4315	.	.	.	none	.	.	PASS	Atlas-SNP
ECSIT	51295	hgsc.bcm.edu	hg19	19	11618829	11618829	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ECSIT	NM_001142464	exon5	c.A773G	p.D258G	GGGGGATCTGCTG	.	117.0	39.0	105.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
HOOK2	29911	hgsc.bcm.edu	hg19	19	12875721	12875721	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	HOOK2	NM_013312	exon20	c.G1734A	p.R578R	CTCGATCCGCCGG	.	145.0	9.0	108.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
NOTCH3	4854	hgsc.bcm.edu	hg19	19	15288375	15288375	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	NOTCH3	NM_000435	exon24	c.A4364G	p.N1455S	TCGAAGTTGTCGT	.	15.0	4.0	28.0	0.0	.	340	.	.	.	none	.	.	PASS	Atlas-SNP
UNC13A	23025	hgsc.bcm.edu	hg19	19	17750273	17750273	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	UNC13A	NM_001080421	exon23	c.T2918A	p.L973H	CTGGTGAGAAGGT	.	32.0	8.0	40.0	0.0	.	299	.	.	.	none	.	.	PASS	Atlas-SNP
CYP2A13	1553	hgsc.bcm.edu	hg19	19	41596079	41596079	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	CYP2A13	NM_000766	exon3	c.C471G	p.I157M	CCTCATCGACGCC	.	75.0	46.0	76.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
DMWD	1762	hgsc.bcm.edu	hg19	19	46289265	46289265	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	DMWD	NM_004943	exon3	c.C1489T	p.P497S	GGTGCGGGAGACT	.	19.0	7.0	25.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
HRC	3270	hgsc.bcm.edu	hg19	19	49658341	49658341	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	HRC	NM_002152	exon1	c.G154A	p.E52K	ATGCCTCCTCGGA	.	173.0	24.0	187.0	0.0	.	85	.	.	.	none	.	.	PASS	Atlas-SNP
FPR2	2358	hgsc.bcm.edu	hg19	19	52272650	52272650	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	FPR2	NM_001005738	exon2	c.G739C	p.V247L	GCTGTGGTGGCTT	.	63.0	28.0	81.0	0.0	.	66	.	.	.	none	.	.	PASS	Atlas-SNP
LAIR2	3904	hgsc.bcm.edu	hg19	19	55019129	55019129	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	LAIR2	NM_002288	exon3	c.T94A	p.S32T	TCCATCTCGGCTG	.	222.0	79.0	259.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
PROCR	10544	hgsc.bcm.edu	hg19	20	33762617	33762617	+	Silent	SNP	A	A	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PROCR	NM_006404	exon2	c.A183T	p.P61P	AGGCCCAGACACC	.	75.0	30.0	63.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
SLC13A3	64849	hgsc.bcm.edu	hg19	20	45204227	45204227	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SLC13A3	NM_022829	exon10	c.G1317T	p.M439I	TTTGGCCATGGCG	.	17.0	7.0	25.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF831	128611	hgsc.bcm.edu	hg19	20	57766279	57766279	+	Missense_Mutation	SNP	G	G	A	rs375833789		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ZNF831	NM_178457	exon1	c.G205A	p.G69R	CCTCCCGGGGGCC	.	25.0	11.0	29.0	0.0	.	287	.	.	.	weak	.	.	PASS	Atlas-SNP
LIPI	149998	hgsc.bcm.edu	hg19	21	15554081	15554081	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	LIPI	NM_198996	exon4	c.A704G	p.N235S	TTACCATTGGAGT	.	45.0	22.0	42.0	0.0	.	95	.	.	.	none	.	.	PASS	Atlas-SNP
DEPDC5	9681	hgsc.bcm.edu	hg19	22	32301997	32301997	+	Silent	SNP	T	T	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	DEPDC5	NM_001242896	exon42	c.T4464G	p.S1488S	ATATTCTGCCTCT	.	39.0	20.0	61.0	0.0	.	266	.	.	.	none	.	.	PASS	Atlas-SNP
GPKOW	27238	hgsc.bcm.edu	hg19	X	48979068	48979068	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	GPKOW	NM_015698	exon2	c.C235T	p.R79C	GCCTGCGATGGCC	.	35.0	17.0	24.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
ESX1	80712	hgsc.bcm.edu	hg19	X	103499100	103499100	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ESX1	NM_153448	exon2	c.G241A	p.E81K	CCGGCTCGTGGCC	.	274.0	33.0	283.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF318	24149	hgsc.bcm.edu	hg19	6	43320114	43320114	+	Splice_Site	DEL	C	C	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ZNF318	NM_014345	exon6	c.2770+2G>-	.	.	.	68.0	30.0	66.0	0.0	.	175	.	0.441176	0	none	.	.	PASS	Atlas-INDEL
POMGNT1	55624	hgsc.bcm.edu	hg19	1	46662703	46662704	+	Frame_Shift_Del	DEL	GA	GA	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	GA	GA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	POMGNT1	NM_017739	exon3	c.174_175del	p.58_59del	.	.	257.0	97.0	312.0	0.0	.	96	.	0.377432	0	none	.	.	PASS	Atlas-INDEL
DSC3	1825	hgsc.bcm.edu	hg19	18	28576918	28576918	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	DSC3	NM_024423	exon15	c.2333delC	p.T778fs	.	.	60.0	22.0	62.0	0.0	.	225	.	0.366667	0	none	.	.	PASS	Atlas-INDEL
PLXNB2	23654	hgsc.bcm.edu	hg19	22	50719301	50719302	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PLXNB2	NM_012401	exon24	c.3865_3866insA	p.S1289fs	.	.	42.0	13.0	52.0	0.0	.	172	.	0.309524	0	none	.	.	PASS	Atlas-INDEL
RAB6A	5870	hgsc.bcm.edu	hg19	11	73418504	73418504	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	RAB6A	NM_002869	exon6	c.457delA	p.I153fs	.	.	121.0	51.0	184.0	0.0	.	17	.	0.421488	0	none	.	.	PASS	Atlas-INDEL
NAPSA	9476	hgsc.bcm.edu	hg19	19	50862007	50862007	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	NAPSA	NM_004851	exon9	c.1067delC	p.S356fs	.	.	22.0	11.0	31.0	0.0	.	38	.	0.5	0	none	.	.	PASS	Atlas-INDEL
TENM3	55714	hgsc.bcm.edu	hg19	4	183664509	183664515	+	Frame_Shift_Del	DEL	GCGATTT	GCGATTT	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	GCGATTT	GCGATTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	.	NM_001080477	exon18	c.3565_3571del	p.1189_1191del	.	.	70.0	19.0	112.0	0.0	.	.	.	0.271429	0	none	.	.	PASS	Atlas-INDEL
MLL2	8085	hgsc.bcm.edu	hg19	12	49434210	49434210	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	MLL2	NM_003482	exon31	c.7344delC	p.D2448fs	.	.	76.0	31.0	76.0	0.0	.	1173	.	0.407895	0	none	.	.	PASS	Atlas-INDEL
USP28	57646	hgsc.bcm.edu	hg19	11	113679118	113679119	+	Frame_Shift_Ins	INS	-	-	TG	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	USP28	NM_020886	exon18	c.2206_2207insCA	p.S736fs	.	.	142.0	54.0	122.0	0.0	.	135	.	0.380282	0	none	.	.	PASS	Atlas-INDEL