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
OR2M7	391196	hgsc.bcm.edu	hg19	1	248487257	248487257	+	Missense_Mutation	SNP	A	A	C	rs144715512	byfrequency;alternate_allele	TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	OR2M7,NS,carcinoma,0,1	OR2M7	NM_001004691	exon1	c.T614G	p.V205G	AGCATTACTATAC	.	50.0	2.0	299.0	1.0	.	84	.	.	.	alt	A|1.000;G|0.000	.	PASS	Atlas-SNP
TMEM214	54867	hgsc.bcm.edu	hg19	2	27259433	27259433	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	TMEM214	NM_017727	exon6	c.T799G	p.F267V	GCAGGTTTTGCCA	.	611.0	177.0	124.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
CGREF1	10669	hgsc.bcm.edu	hg19	2	27327221	27327221	+	Missense_Mutation	SNP	G	G	T	rs112618911	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	CGREF1	NM_001166239	exon2	c.C14A	p.T5K	GTCATCGTCAAAG	.	149.0	38.0	37.0	0.0	.	31	.	.	.	alt	G|0.998;A|0.002	.	PASS	Atlas-SNP
CEBPZ	10153	hgsc.bcm.edu	hg19	2	37454852	37454852	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	CEBPZ	NM_005760	exon2	c.C1484T	p.P495L	GAATAAGGGTATG	.	34.0	20.0	69.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
GPR45	11250	hgsc.bcm.edu	hg19	2	105858582	105858582	+	Silent	SNP	C	C	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	GPR45	NM_007227	exon1	c.C267G	p.P89P	CATGCCCTTCACC	.	527.0	245.0	151.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
TFCP2L1	29842	hgsc.bcm.edu	hg19	2	122042681	122042681	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	TFCP2L1	NM_014553	exon1	c.T5A	p.L2H	CAGAAGAGCATGG	.	31.0	19.0	14.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
ALS2	57679	hgsc.bcm.edu	hg19	2	202626257	202626257	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	ALS2	NM_001135745	exon4	c.C460T	p.Q154X	CCAACTGTAAAAT	.	121.0	55.0	50.0	0.0	.	172	.	.	.	none	.	.	PASS	Atlas-SNP
CIDEC	63924	hgsc.bcm.edu	hg19	3	9911862	9911862	+	Missense_Mutation	SNP	G	G	C	rs201802471		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.,1	CIDEC	NM_001199623	exon4	c.C391G	p.P131A	ATGGGGGCTGCCA	.	367.0	90.0	114.0	0.0	.	22	.	.	.	weak	G|0.999;C|0.001	0.001	PASS	Atlas-SNP
DTX3L	151636	hgsc.bcm.edu	hg19	3	122283388	122283388	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	DTX3L	NM_138287	exon1	c.G115T	p.G39W	GGCGGCGGGGAGT	.	365.0	62.0	115.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
FAM43A	131583	hgsc.bcm.edu	hg19	3	194408136	194408136	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	FAM43A	NM_153690	exon1	c.A581G	p.N194S	CGGCCAACGCGCT	.	24.0	5.0	0.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
PDCD6	10016	hgsc.bcm.edu	hg19	5	311485	311485	+	Missense_Mutation	SNP	G	G	A	rs368897410		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	PDCD6	NM_013232	exon5	c.G445A	p.D149N	GCCTTCGACGACT	.	163.0	44.0	37.0	0.0	.	24	.	.	.	weak	.	.	PASS	Atlas-SNP
NSUN2	54888	hgsc.bcm.edu	hg19	5	6616902	6616902	+	Missense_Mutation	SNP	G	G	T	rs138724893	alternate_allele	TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	NSUN2,NS,carcinoma,0,1	NSUN2	NM_017755	exon9	c.C959A	p.T320K	GAACACGTGGAAT	.	86.0	38.0	68.0	0.0	.	82	.	.	.	alt	G|1.000;A|0.000	.	PASS	Atlas-SNP
MEGF10	84466	hgsc.bcm.edu	hg19	5	126753406	126753406	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	MEGF10	NM_032446	exon11	c.G1207A	p.G403R	TCTCCTGGATTCT	.	106.0	49.0	45.0	0.0	.	152	.	.	.	none	.	.	PASS	Atlas-SNP
TCERG1	10915	hgsc.bcm.edu	hg19	5	145838701	145838701	+	Silent	SNP	T	T	C	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	TCERG1,NS,carcinoma,0,2	TCERG1	NM_006706	exon4	c.T693C	p.A231A	TCAGGCTCAGGCA	.	129.0	8.0	39.0	0.0	.	148	.	.	.	none	.	.	PASS	Atlas-SNP
TFAP2A	7020	hgsc.bcm.edu	hg19	6	10398708	10398708	+	Missense_Mutation	SNP	T	T	G	rs201591227		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	TFAP2A	NM_003220	exon7	c.A1256C	p.N419T	TGGCTGTTGGGGT	.	1832.0	626.0	715.0	1.0	.	129	.	.	.	weak	.	.	PASS	Atlas-SNP
CAP2	10486	hgsc.bcm.edu	hg19	6	17507928	17507928	+	Silent	SNP	T	T	C	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	CAP2	NM_006366	exon6	c.T501C	p.T167T	TTACACTAACAGG	.	132.0	50.0	143.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
HIST1H1C	3006	hgsc.bcm.edu	hg19	6	26056427	26056427	+	Missense_Mutation	SNP	T	T	G	rs182693914	bycluster	TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	HIST1H1C,NS,carcinoma,0,1	HIST1H1C	NM_005319	exon1	c.A230C	p.N77T	CGGCTGTTGTTTT	.	476.0	201.0	162.0	2.0	.	80	.	.	.	weak	.	.	PASS	Atlas-SNP
CAV2	858	hgsc.bcm.edu	hg19	7	116140377	116140377	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	CAV2	NM_001233	exon2	c.T214A	p.C72S	TGGATCTGCAGCC	.	348.0	92.0	69.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
DPYSL2	1808	hgsc.bcm.edu	hg19	8	26505196	26505196	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	DPYSL2	NM_001197293	exon11	c.T1476A	p.N492K	CACCAATGCAGCC	.	190.0	118.0	106.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
TLN1	7094	hgsc.bcm.edu	hg19	9	35711016	35711016	+	Silent	SNP	C	C	T	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	TLN1	NM_006289	exon31	c.G4083A	p.K1361K	ACACTCCTTCTGG	.	184.0	49.0	49.0	0.0	.	185	.	.	.	none	.	.	PASS	Atlas-SNP
ZCCHC6	79670	hgsc.bcm.edu	hg19	9	88940291	88940291	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	ZCCHC6	NM_024617	exon12	c.C1747G	p.R583G	ATTCCCGAGATAC	.	34.0	12.0	81.0	0.0	.	105	.	.	.	none	.	.	PASS	Atlas-SNP
ANK3	288	hgsc.bcm.edu	hg19	10	61819138	61819138	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	ANK3_ENST00000355288,colon,carcinoma,0,2	ANK3	NM_020987	exon41	c.C12646G	p.R4216G	CTCTTCGAGCTTG	.	39.0	2.0	139.0	0.0	.	703	.	.	.	none	.	.	PASS	Atlas-SNP
SEC31B	25956	hgsc.bcm.edu	hg19	10	102255181	102255181	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	SEC31B	NM_015490	exon19	c.G2433C	p.E811D	TGATGTCTCTTTA	.	33.0	17.0	40.0	0.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
DCLRE1A	9937	hgsc.bcm.edu	hg19	10	115608965	115608965	+	Silent	SNP	A	A	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	DCLRE1A	NM_014881	exon2	c.T1899C	p.R633R	TTTTTGACGCTGT	.	225.0	84.0	145.0	0.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
SLC43A3	29015	hgsc.bcm.edu	hg19	11	57188512	57188512	+	Missense_Mutation	SNP	C	C	T	rs148055054		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	SLC43A3	NM_017611	exon7	c.G464A	p.R155H	GTCGAACGGTGTT	.	91.0	35.0	63.0	0.0	.	54	.	.	.	weak	C|1.000;T|0.000	0.000	PASS	Atlas-SNP
TMPRSS13	84000	hgsc.bcm.edu	hg19	11	117789447	117789447	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	TMPRSS13	NM_001206790	exon2	c.A128G	p.Q43R	GATGCCTGGGCTG	.	280.0	12.0	60.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
ST3GAL4	6484	hgsc.bcm.edu	hg19	11	126276866	126276866	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	ST3GAL4	NM_001254757	exon4	c.G130C	p.E44Q	AAGAAGGAGCCGT	.	419.0	165.0	94.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
MYBPC1	4604	hgsc.bcm.edu	hg19	12	102038482	102038482	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	MYBPC1	NM_206819	exon12	c.A873T	p.K291N	TGACAAAGGAGGC	.	65.0	18.0	40.0	0.0	.	235	.	.	.	none	.	.	PASS	Atlas-SNP
ACAD10	80724	hgsc.bcm.edu	hg19	12	112174685	112174685	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	ACAD10	NM_001136538	exon13	c.T1684A	p.Y562N	GAGGAGTATTTCA	.	132.0	50.0	44.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
EP400	57634	hgsc.bcm.edu	hg19	12	132551479	132551479	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	EP400	NM_015409	exon49	c.T8714A	p.I2905N	CGGGGATCAGCGT	.	89.0	35.0	47.0	0.0	.	370	.	.	.	none	.	.	PASS	Atlas-SNP
IFT88	8100	hgsc.bcm.edu	hg19	13	21189985	21189985	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	IFT88	NM_175605	exon16	c.T1193G	p.V398G	CTCCTGTAATTGA	.	181.0	63.0	62.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
IFT88	8100	hgsc.bcm.edu	hg19	13	21189988	21189988	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	IFT88	NM_175605	exon16	c.T1196A	p.I399N	CTGTAATTGAAAC	.	180.0	60.0	61.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
CLMN	79789	hgsc.bcm.edu	hg19	14	95669398	95669398	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	CLMN	NM_024734	exon9	c.A2288G	p.Y763C	GGCATATAGCCCT	.	206.0	84.0	20.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
FBXO22	26263	hgsc.bcm.edu	hg19	15	76196905	76196905	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	FBXO22	NM_012170	exon2	c.G214A	p.G72S	TCCGCAGGCCTGG	.	305.0	92.0	129.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
CREBBP	1387	hgsc.bcm.edu	hg19	16	3808859	3808859	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	CREBBP	NM_004380	exon17	c.T3365C	p.I1122T	ACTGGAATTCCGA	.	62.0	14.0	64.0	0.0	.	546	.	.	.	none	.	.	PASS	Atlas-SNP
HERPUD1	9709	hgsc.bcm.edu	hg19	16	56970652	56970652	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	HERPUD1	NM_014685	exon4	c.G354T	p.E118D	TCCTGAGGATTCC	.	77.0	41.0	85.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	hg19	16	72984698	72984698	+	Silent	SNP	G	G	A	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	ZFHX3	NM_006885	exon3	c.C2886T	p.G962G	GTGCAGGCCCAGC	.	260.0	65.0	38.0	0.0	.	404	.	.	.	none	.	.	PASS	Atlas-SNP
USP6	9098	hgsc.bcm.edu	hg19	17	5042939	5042939	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	USP6	NM_004505	exon14	c.A1468C	p.T490P	CTGGCCACCTGCT	.	325.0	20.0	66.0	0.0	.	213	.	.	.	none	.	.	PASS	Atlas-SNP
PER1	5187	hgsc.bcm.edu	hg19	17	8047043	8047043	+	Silent	SNP	T	T	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	PER1,NS,carcinoma,0,1	PER1	NM_002616	exon19	c.A2613C	p.P871P	GGCTGGTGGGGTG	.	52.0	29.0	11.0	1.0	.	104	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP4-6	81871	hgsc.bcm.edu	hg19	17	39296395	39296395	+	Silent	SNP	A	A	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	KRTAP4-6	NM_030976	exon1	c.T345C	p.C115C	GGGGCGACAGCAG	.	187.0	11.0	51.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP4-2	85291	hgsc.bcm.edu	hg19	17	39334233	39334233	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	KRTAP4-2	NM_033062	exon1	c.A184C	p.S62R	TGGGGCTGCAGCA	.	477.0	30.0	123.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP4-1	85285	hgsc.bcm.edu	hg19	17	39340878	39340878	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	KRTAP4-1	NM_033060	exon1	c.A229C	p.S77R	CACAGCTGGGGCG	.	197.0	9.0	104.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
GHDC	84514	hgsc.bcm.edu	hg19	17	40344945	40344945	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	GHDC	NM_001142623	exon4	c.C366A	p.D122E	CCCAAGGTCCTGG	.	674.0	230.0	144.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
ITGB4	3691	hgsc.bcm.edu	hg19	17	73732406	73732406	+	Missense_Mutation	SNP	G	G	C	rs201929789	bycluster	TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	ITGB4,colon,carcinoma,0,1	ITGB4	NM_001005731	exon15	c.G1799C	p.R600P	GTGGCCGCTGCCA	.	385.0	151.0	123.0	0.0	.	165	.	.	.	weak	G|0.998;C|0.002	0.002	PASS	Atlas-SNP
FAM108A1	81926	hgsc.bcm.edu	hg19	19	1881347	1881347	+	Silent	SNP	A	A	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	FAM108A1,NS,carcinoma,0,1	FAM108A1	NM_031213	exon2	c.T219C	p.R73R	GTCGGCACGCTCC	.	190.0	8.0	75.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
PLEKHJ1	55111	hgsc.bcm.edu	hg19	19	2234038	2234038	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	PLEKHJ1	NM_018049	exon5	c.C343A	p.L115I	AGATGAGGCTTCT	.	567.0	185.0	176.0	0.0	.	7	.	.	.	none	.	.	PASS	Atlas-SNP
KDM4B	23030	hgsc.bcm.edu	hg19	19	5131903	5131903	+	Silent	SNP	G	G	C	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	KDM4B	NM_015015	exon13	c.G1791C	p.P597P	GGCACCGTCCACA	.	89.0	20.0	31.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
MRI1	84245	hgsc.bcm.edu	hg19	19	13875777	13875777	+	Silent	SNP	C	C	T	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	MRI1	NM_001031727	exon2	c.C225T	p.L75L	CGCGCTCGTGGCC	.	8.0	6.0	0.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
UBA2	10054	hgsc.bcm.edu	hg19	19	34921484	34921484	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	UBA2	NM_005499	exon2	c.G142C	p.D48H	TAGATTGATCTGG	.	152.0	52.0	95.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
RYR1	6261	hgsc.bcm.edu	hg19	19	39039030	39039030	+	Silent	SNP	T	T	C	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	RYR1	NM_000540	exon89	c.T12252C	p.R4084R	TCCCCGTGGCCTC	.	299.0	101.0	99.0	0.0	.	708	.	.	.	none	.	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	hg19	19	40366038	40366038	+	Silent	SNP	C	C	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	FCGBP	NM_003890	exon30	c.G14196C	p.P4732P	GAAGTCCGGCCGC	.	205.0	59.0	164.0	0.0	.	416	.	.	.	none	.	.	PASS	Atlas-SNP
NUCB1	4924	hgsc.bcm.edu	hg19	19	49422348	49422348	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	NUCB1	NM_006184	exon9	c.G878A	p.R293Q	AGGAGCGACTGCG	.	126.0	43.0	39.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF665	79788	hgsc.bcm.edu	hg19	19	53668284	53668284	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	ZNF665	NM_024733	exon4	c.A1459T	p.K487X	CACACTTGTAAGG	.	217.0	68.0	88.0	0.0	.	136	.	.	.	none	.	.	PASS	Atlas-SNP
LILRB2	10288	hgsc.bcm.edu	hg19	19	54783677	54783677	+	Silent	SNP	C	C	T	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	LILRB2	NM_005874	exon4	c.G324A	p.E108E	ACTGAGCTCAGAC	.	359.0	108.0	101.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF71	58491	hgsc.bcm.edu	hg19	19	57133670	57133670	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	ZNF71,NS,carcinoma,0,1	ZNF71	NM_021216	exon3	c.T1015G	p.S339A	CAGAGCTCCTACC	.	180.0	9.0	127.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
NF2	4771	hgsc.bcm.edu	hg19	22	30000103	30000103	+	Splice_Site	SNP	T	T	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	NF2	NM_016418	exon1	c.114+2T>G	.	GCGAGGTAACCGG	.	17.0	15.0	7.0	0.0	.	1312	.	.	.	none	.	.	PASS	Atlas-SNP
MAOA	4128	hgsc.bcm.edu	hg19	X	43590945	43590945	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	MAOA	NM_000240	exon8	c.A800C	p.K267T	AGTGCAAATACGT	.	95.0	30.0	82.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
NOX1	27035	hgsc.bcm.edu	hg19	X	100099033	100099033	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	NOX1	NM_007052	exon13	c.A1603G	p.T535A	CCAAAGTCCGAGG	.	34.0	13.0	20.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
FLT4	2324	hgsc.bcm.edu	hg19	5	180052935	180052936	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	FLT4	NM_182925	exon10	c.1355_1356insC	p.L452fs	.	.	323.0	30.0	69.0	0.0	.	356	.	0.0928793	0	none	.	.	PASS	Atlas-INDEL
SCMH1	22955	hgsc.bcm.edu	hg19	1	41579112	41579113	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	SCMH1	NM_001172219	exon8	c.588_589insC	p.P196fs	.	.	107.0	20.0	55.0	0.0	.	120	.	0.186916	0	none	.	.	PASS	Atlas-INDEL
TMEM132E	124842	hgsc.bcm.edu	hg19	17	32964849	32964850	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	TMEM132E	NM_207313	exon10	c.2553_2554insC	p.G851fs	.	.	347.0	19.0	69.0	0.0	.	122	.	0.054755	0	none	.	.	PASS	Atlas-INDEL
CTCFL	140690	hgsc.bcm.edu	hg19	20	56098886	56098887	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	CTCFL	NM_001269044	exon1	c.376_377insG	p.P126fs	.	.	415.0	24.0	119.0	0.0	.	97	.	0.0578313	0	none	.	.	PASS	Atlas-INDEL
URGCP	55665	hgsc.bcm.edu	hg19	7	43916495	43916495	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	URGCP	NM_001077663	exon6	c.2568delC	p.G856fs	.	.	167.0	39.0	42.0	0.0	.	170	.	0.233533	0	none	.	.	PASS	Atlas-INDEL
AHCY	191	hgsc.bcm.edu	hg19	20	32868894	32868914	+	In_Frame_Del	DEL	CTGGGCTTGCTTCTCAGTTAG	CTGGGCTTGCTTCTCAGTTAG	-	novel		TCGA-B9-4117-01A-01D-1252-08	TCGA-B9-4117-10A-01D-1252-08	CTGGGCTTGCTTCTCAGTTAG	CTGGGCTTGCTTCTCAGTTAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	022fd0e9-aeef-4d27-a58a-66acca664e1d	1dfccb8c-84c0-4831-983e-08d93bf00ad4	.	AHCY	NM_000687	exon10	c.1226_1246del	p.409_416del	.	.	104.0	26.0	44.0	0.0	.	43	.	0.25	0	none	.	.	PASS	Atlas-INDEL
