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	dbSNP_AF	Algorithm
TNFRSF4	7293	hgsc.bcm.edu	hg19	1	1148457	1148457	+	Silent	SNP	C	C	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	TNFRSF4	NM_003327	exon3	c.G285C	p.R95R	CTGCTTCCGCTCA	.	110.0	49.0	87.0	0.0	.	12	.	.	Atlas-SNP
AADACL3	126767	hgsc.bcm.edu	hg19	1	12785873	12785873	+	Silent	SNP	A	A	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	AADACL3	NM_001103170	exon4	c.A963G	p.G321G	CCATGGAGTGCTC	.	120.0	52.0	114.0	0.0	.	84	.	.	Atlas-SNP
PRAMEF12	390999	hgsc.bcm.edu	hg19	1	12835197	12835197	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	PRAMEF12	NM_001080830	exon1	c.T187C	p.C63R	TTCACCTGCCTTC	.	215.0	47.0	167.0	0.0	.	69	.	.	Atlas-SNP
USP48	84196	hgsc.bcm.edu	hg19	1	22032230	22032230	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	USP48,NS,carcinoma,0,1	USP48	NM_032236	exon19	c.G2374A	p.D792N	TAGAATCTTCTTT	.	492.0	110.0	402.0	2.0	.	91	.	.	Atlas-SNP
EPHB2	2048	hgsc.bcm.edu	hg19	1	23232505	23232505	+	Silent	SNP	C	C	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	EPHB2_ENST00000374632,NS,carcinoma,0,2	EPHB2	NM_004442	exon10	c.C1794T	p.I598I	CTACATCGATCCT	.	78.0	22.0	93.0	0.0	.	257	.	.	Atlas-SNP
THRAP3	9967	hgsc.bcm.edu	hg19	1	36755239	36755239	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	THRAP3	NM_005119	exon5	c.A1619G	p.K540R	CAAGAAAGACCTC	.	106.0	24.0	106.0	0.0	.	93	.	.	Atlas-SNP
COL9A2	1298	hgsc.bcm.edu	hg19	1	40770006	40770006	+	Missense_Mutation	SNP	C	C	T	rs148912050	alternate_allele	TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	COL9A2	NM_001852	exon24	c.G1273A	p.V425I	CTTTGACGCCTGG	.	108.0	33.0	80.0	0.0	.	63	.	C|1.000;G|0.000	Atlas-SNP
NRD1	4898	hgsc.bcm.edu	hg19	1	52254955	52254955	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	NRD1	NM_002525	exon33	c.T3613G	p.F1205V	TTGTGAAAGCCCT	.	126.0	49.0	139.0	0.0	.	89	.	.	Atlas-SNP
HOOK1	51361	hgsc.bcm.edu	hg19	1	60331564	60331564	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	HOOK1	NM_015888	exon19	c.G1765A	p.E589K	GAACTTGAAGCTG	.	701.0	239.0	666.0	1.0	.	54	.	.	Atlas-SNP
RPF1	80135	hgsc.bcm.edu	hg19	1	84955365	84955365	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	RPF1	NM_025065	exon4	c.A416T	p.Q139L	ACAAACAGACTTC	.	93.0	29.0	101.0	0.0	.	31	.	.	Atlas-SNP
POLR3C	10623	hgsc.bcm.edu	hg19	1	145608260	145608260	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	POLR3C	NM_006468	exon4	c.A437G	p.N146S	AATGTGTTTGATA	.	124.0	21.0	65.0	0.0	.	41	.	.	Atlas-SNP
ASH1L	55870	hgsc.bcm.edu	hg19	1	155311812	155311812	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	ASH1L	NM_018489	exon25	c.T8375G	p.I2792S	CGGTGGATCTTGT	.	191.0	71.0	135.0	0.0	.	279	.	.	Atlas-SNP
WNT3A	89780	hgsc.bcm.edu	hg19	1	228246759	228246759	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	WNT3A	NM_033131	exon4	c.T652A	p.W218R	ACATGCTGGTGGT	.	75.0	20.0	60.0	0.0	.	40	.	.	Atlas-SNP
DISC1	27185	hgsc.bcm.edu	hg19	1	232144685	232144685	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.,1	DISC1	NM_001164537	exon12	c.C2293A	p.P765T	CCTATTCCCCCCA	.	106.0	40.0	115.0	0.0	.	207	.	.	Atlas-SNP
MTIF2	4528	hgsc.bcm.edu	hg19	2	55470681	55470681	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	MTIF2	NM_002453	exon12	c.G1435T	p.E479X	ACTTCTCACGGGC	.	139.0	58.0	104.0	0.0	.	64	.	.	Atlas-SNP
FAP	2191	hgsc.bcm.edu	hg19	2	163027578	163027578	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	FAP	NM_004460	exon26	c.C2194A	p.Q732K	GGTTCTGGTCAGA	.	108.0	21.0	93.0	0.0	.	122	.	.	Atlas-SNP
SPHKAP	80309	hgsc.bcm.edu	hg19	2	228996764	228996764	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	SPHKAP	NM_030623	exon2	c.C70A	p.P24T	GCTGCGGTTCCAA	.	73.0	32.0	76.0	0.0	.	750	.	.	Atlas-SNP
CYP8B1	1582	hgsc.bcm.edu	hg19	3	42916016	42916016	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	CYP8B1	NM_004391	exon1	c.G1293T	p.M431I	CCAGGGCATGGTG	.	181.0	64.0	147.0	0.0	.	59	.	.	Atlas-SNP
NR1I2	8856	hgsc.bcm.edu	hg19	3	119530469	119530469	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	NR1I2	NM_022002	exon4	c.G532T	p.G178X	CCACTGGGAGTGC	.	131.0	8.0	133.0	0.0	.	44	.	.	Atlas-SNP
SLC2A2	6514	hgsc.bcm.edu	hg19	3	170732428	170732428	+	Silent	SNP	C	C	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	SLC2A2	NM_000340	exon3	c.G201C	p.L67L	TGTGGGCAGTTCA	.	175.0	38.0	164.0	0.0	.	71	.	.	Atlas-SNP
VWA5B2	90113	hgsc.bcm.edu	hg19	3	183959685	183959685	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	VWA5B2	NM_138345	exon19	c.C3588A	p.C1196X	TGATTGCTGGCTG	.	81.0	15.0	78.0	0.0	.	47	.	.	Atlas-SNP
KIAA1211	57482	hgsc.bcm.edu	hg19	4	57164426	57164426	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	KIAA1211	NM_020722	exon4	c.A31T	p.I11F	GACAGTATTTTTA	.	147.0	91.0	113.0	0.0	.	178	.	.	Atlas-SNP
SYNPO2	171024	hgsc.bcm.edu	hg19	4	119947953	119947953	+	Silent	SNP	T	T	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	SYNPO2_ENST00000307142,NS,carcinoma,0,2	SYNPO2	NM_001128934	exon3	c.T429A	p.A143A	CCTAGCTGAGAAC	.	274.0	67.0	188.0	0.0	.	353	.	.	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	hg19	4	126237717	126237717	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	FAT4	NM_024582	exon1	c.G151T	p.V51L	TTCCAAGTGCTGG	.	95.0	50.0	81.0	0.0	.	1752	.	.	Atlas-SNP
TLL1	7092	hgsc.bcm.edu	hg19	4	166978381	166978381	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	TLL1	NM_012464	exon14	c.G1766A	p.R589Q	AGCAGCGATGTCT	.	148.0	97.0	119.0	0.0	.	194	.	.	Atlas-SNP
MCC	4163	hgsc.bcm.edu	hg19	5	112823977	112823977	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	MCC	NM_001085377	exon1	c.G135C	p.Q45H	GCACGTCTGGAAG	.	57.0	29.0	64.0	0.0	.	234	.	.	Atlas-SNP
TGFBI	7045	hgsc.bcm.edu	hg19	5	135392461	135392461	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	TGFBI	NM_000358	exon12	c.C1655T	p.P552L	TGCCACCAAGAGA	.	225.0	37.0	299.0	0.0	.	76	.	.	Atlas-SNP
FAF2	23197	hgsc.bcm.edu	hg19	5	175923517	175923517	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	FAF2	NM_014613	exon8	c.C692A	p.P231Q	CCTATCCATTCCT	.	154.0	48.0	107.0	0.0	.	38	.	.	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	hg19	6	33638235	33638235	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	ITPR3	NM_002224	exon19	c.G2323T	p.A775S	CTGCGCGCCTCCT	.	66.0	23.0	59.0	0.0	.	409	.	.	Atlas-SNP
MICAL1	64780	hgsc.bcm.edu	hg19	6	109771627	109771627	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	MICAL1	NM_022765	exon8	c.A1067T	p.H356L	TGCCCATGGGCAT	.	172.0	65.0	150.0	0.0	.	79	.	.	Atlas-SNP
ZBTB24	9841	hgsc.bcm.edu	hg19	6	109803061	109803061	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	ZBTB24	NM_014797	exon2	c.G169T	p.A57S	TACTGGCAGCAAG	.	172.0	59.0	144.0	0.0	.	64	.	.	Atlas-SNP
SERINC1	57515	hgsc.bcm.edu	hg19	6	122777722	122777722	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	SERINC1	NM_020755	exon3	c.G275A	p.R92H	CACAAACGATATA	.	180.0	24.0	151.0	0.0	.	39	.	.	Atlas-SNP
RMND1	55005	hgsc.bcm.edu	hg19	6	151748616	151748616	+	Splice_Site	SNP	C	C	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	RMND1	NM_017909	exon7	c.830+1G>A	.	TGCTTACTCTATT	.	88.0	23.0	66.0	0.0	.	32	.	.	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	hg19	6	152540223	152540223	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	SYNE1	NM_182961	exon120	c.C21959T	p.S7320L	ATAGCTGATGCTG	.	96.0	30.0	69.0	0.0	.	3227	.	.	Atlas-SNP
OPRM1	4988	hgsc.bcm.edu	hg19	6	154428655	154428655	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	OPRM1	NM_001145286	exon4	c.A1220G	p.Y407C	TGAGCTACAATGC	.	106.0	43.0	73.0	0.0	.	241	.	.	Atlas-SNP
LFNG	3955	hgsc.bcm.edu	hg19	7	2564371	2564371	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	LFNG	NM_001040167	exon2	c.C475T	p.H159Y	GCCAGGCACACGG	.	280.0	98.0	236.0	0.0	.	57	.	.	Atlas-SNP
SP8	221833	hgsc.bcm.edu	hg19	7	20824970	20824970	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	SP8	NM_182700	exon2	c.G466A	p.G156S	CGCCGCCGCTGCC	.	77.0	6.0	75.0	0.0	.	43	.	.	Atlas-SNP
ANLN	54443	hgsc.bcm.edu	hg19	7	36447554	36447554	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	ANLN	NM_018685	exon5	c.C1085A	p.S362Y	ACAAATCTACGAC	.	113.0	17.0	83.0	0.0	.	101	.	.	Atlas-SNP
WBSCR28	135886	hgsc.bcm.edu	hg19	7	73280168	73280168	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	WBSCR28	NM_182504	exon3	c.A763G	p.T255A	TCTGGAACAGTTT	.	33.0	18.0	35.0	0.0	.	24	.	.	Atlas-SNP
TAF6	6878	hgsc.bcm.edu	hg19	7	99704953	99704953	+	Silent	SNP	A	A	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	TAF6	NM_001190415	exon15	c.T2061C	p.A687A	GTCCCCAGCCTCC	.	49.0	27.0	35.0	0.0	.	55	.	.	Atlas-SNP
CALD1	800	hgsc.bcm.edu	hg19	7	134644750	134644750	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	CALD1	NM_033138	exon12	c.A2087C	p.K696T	CTACAAAGCCGGC	.	205.0	82.0	197.0	0.0	.	150	.	.	Atlas-SNP
MYOM2	9172	hgsc.bcm.edu	hg19	8	2054372	2054372	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	MYOM2	NM_003970	exon23	c.G2983T	p.V995F	AGTTTTGTTCTGG	.	81.0	56.0	148.0	0.0	.	251	.	.	Atlas-SNP
FNTA	2339	hgsc.bcm.edu	hg19	8	42938314	42938314	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	FNTA	NM_002027	exon7	c.A836C	p.Y279S	GGAACTATTTGAA	.	300.0	168.0	489.0	0.0	.	34	.	.	Atlas-SNP
FAM91A1	157769	hgsc.bcm.edu	hg19	8	124787447	124787447	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	FAM91A1	NM_144963	exon3	c.A218G	p.D73G	GCCGAGATCATCT	.	218.0	20.0	112.0	0.0	.	77	.	.	Atlas-SNP
SMARCA2	6595	hgsc.bcm.edu	hg19	9	2070419	2070419	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	SMARCA2	NM_139045	exon10	c.A1694C	p.K565T	TGCAGAAGGCTGA	.	127.0	52.0	141.0	0.0	.	313	.	.	Atlas-SNP
BNC2	54796	hgsc.bcm.edu	hg19	9	16738420	16738420	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	BNC2	NM_017637	exon2	c.G67T	p.E23X	CTTGCTCACTAAG	.	163.0	72.0	139.0	0.0	.	166	.	.	Atlas-SNP
COL5A1	1289	hgsc.bcm.edu	hg19	9	137707833	137707833	+	Missense_Mutation	SNP	C	C	T	rs151115748	bycluster	TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	COL5A1	NM_000093	exon52	c.C4121T	p.T1374M	GGCAGACGGTGAG	.	210.0	75.0	181.0	0.0	.	323	.	C|1.000;T|0.000	Atlas-SNP
AKR1C1	1645	hgsc.bcm.edu	hg19	10	5009211	5009211	+	Silent	SNP	T	T	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	AKR1C1	NM_001353	exon3	c.T345G	p.L115L	CTACCTTATTCAT	.	168.0	16.0	198.0	0.0	.	39	.	.	Atlas-SNP
FZD8	8325	hgsc.bcm.edu	hg19	10	35930025	35930025	+	Silent	SNP	G	G	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	FZD8	NM_031866	exon1	c.C333T	p.C111C	GCGCTCGCACACC	.	63.0	14.0	38.0	0.0	.	41	.	.	Atlas-SNP
RBP3	5949	hgsc.bcm.edu	hg19	10	48388584	48388584	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	RBP3	NM_002900	exon1	c.T2294C	p.V765A	AGCCGCACCAGCT	.	109.0	34.0	100.0	0.0	.	152	.	.	Atlas-SNP
ZRANB1	54764	hgsc.bcm.edu	hg19	10	126655297	126655297	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	ZRANB1	NM_017580	exon2	c.C949T	p.H317Y	CTTGTACACTTGG	.	121.0	30.0	125.0	0.0	.	60	.	.	Atlas-SNP
KIAA1549L	25758	hgsc.bcm.edu	hg19	11	33628245	33628245	+	Silent	SNP	C	C	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	.	NM_012194	exon13	c.C4047A	p.A1349A	GGTGGCCGCTGAA	.	136.0	58.0	125.0	0.0	.	.	.	.	Atlas-SNP
PDGFD	80310	hgsc.bcm.edu	hg19	11	103780494	103780494	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	PDGFD	NM_025208	exon7	c.G1041T	p.M347I	TAGAGCCATGGTC	.	122.0	42.0	123.0	0.0	.	125	.	.	Atlas-SNP
ZNF384	171017	hgsc.bcm.edu	hg19	12	6777081	6777081	+	Silent	SNP	C	C	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.,4	ZNF384	NM_001135734	exon11	c.G1533A	p.Q511Q	CTGCTGCTGCTGC	.	47.0	8.0	33.0	0.0	.	102	.	.	Atlas-SNP
CPNE8	144402	hgsc.bcm.edu	hg19	12	39242371	39242371	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	CPNE8,caecum,carcinoma,0,1	CPNE8	NM_153634	exon4	c.C280T	p.R94C	CAAAACGAAGATT	.	318.0	125.0	275.0	0.0	.	66	.	.	Atlas-SNP
GNPTAB	79158	hgsc.bcm.edu	hg19	12	102161840	102161840	+	Nonsense_Mutation	SNP	G	G	T	rs377176041	alternate_allele	TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	GNPTAB	NM_024312	exon11	c.C1383A	p.C461X	CCAATCGCAGGCT	.	119.0	5.0	130.0	0.0	.	120	.	.	Atlas-SNP
MYO1H	283446	hgsc.bcm.edu	hg19	12	109834356	109834356	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	MYO1H	NM_001101421	exon3	c.A410G	p.D137G	CCCGTGACAGACT	.	98.0	32.0	94.0	0.0	.	98	.	.	Atlas-SNP
ATP2A2	488	hgsc.bcm.edu	hg19	12	110778716	110778716	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	ATP2A2	NM_001681	exon14	c.G2014T	p.A672S	CTGAACGCCCGCT	.	153.0	57.0	128.0	0.0	.	78	.	.	Atlas-SNP
CIT	11113	hgsc.bcm.edu	hg19	12	120271933	120271933	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	CIT	NM_001206999	exon6	c.A616G	p.I206V	CCAAAATCAGCTC	.	110.0	38.0	152.0	0.0	.	535	.	.	Atlas-SNP
SAP18	10284	hgsc.bcm.edu	hg19	13	21721331	21721331	+	Silent	SNP	G	G	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	SAP18	NM_005870	exon4	c.G369A	p.K123K	AGTTAAGGAGATT	.	341.0	72.0	283.0	0.0	.	12	.	.	Atlas-SNP
SACS	26278	hgsc.bcm.edu	hg19	13	23907171	23907171	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	SACS_ENST00000382298,NS,adenocarcinoma,0,2	SACS	NM_014363	exon10	c.A10844C	p.N3615T	GACCAGTTTTCTG	.	92.0	23.0	153.0	0.0	.	871	.	.	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	hg19	13	103398523	103398523	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	.	NM_001146197	exon4	c.T4524G	p.H1508Q	ATTAATATGTAGC	.	140.0	36.0	101.0	0.0	.	.	.	.	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	hg19	13	103398524	103398524	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	.	NM_001146197	exon4	c.A4523T	p.H1508L	TTAATATGTAGCT	.	141.0	37.0	101.0	0.0	.	.	.	.	Atlas-SNP
FOXN3	1112	hgsc.bcm.edu	hg19	14	89878384	89878384	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	FOXN3	NM_005197	exon2	c.A437G	p.E146G	AAATGTTCCAAGA	.	160.0	32.0	164.0	0.0	.	78	.	.	Atlas-SNP
THBS1	7057	hgsc.bcm.edu	hg19	15	39874930	39874930	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	THBS1	NM_003246	exon3	c.G604T	p.G202W	GCAAAGGGGGGCG	.	41.0	15.0	16.0	0.0	.	106	.	.	Atlas-SNP
ONECUT1	3175	hgsc.bcm.edu	hg19	15	53081884	53081884	+	Silent	SNP	T	T	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	ONECUT1	NM_004498	exon1	c.A198C	p.G66G	GTAATCTCCGCCG	.	17.0	7.0	19.0	0.0	.	48	.	.	Atlas-SNP
ADAMTS7	11173	hgsc.bcm.edu	hg19	15	79067100	79067100	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	ADAMTS7	NM_014272	exon12	c.G1742T	p.R581L	CGCTTGCGCTCAC	.	35.0	6.0	28.0	0.0	.	142	.	.	Atlas-SNP
SMG1	23049	hgsc.bcm.edu	hg19	16	18841077	18841077	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	SMG1	NM_015092	exon54	c.G9134T	p.G3045V	CTTGATCCTACAA	.	81.0	28.0	59.0	0.0	.	401	.	.	Atlas-SNP
NCOR1	9611	hgsc.bcm.edu	hg19	17	16040642	16040642	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	NCOR1	NM_001190440	exon13	c.C1492T	p.R498C	CTCTGCGTTTCCC	.	70.0	49.0	99.0	0.0	.	240	.	.	Atlas-SNP
SPECC1	92521	hgsc.bcm.edu	hg19	17	20108414	20108414	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	SPECC1	NM_001033553	exon4	c.A1052G	p.K351R	CCTTTAAGAGTTC	.	182.0	13.0	128.0	0.0	.	100	.	.	Atlas-SNP
NLK	51701	hgsc.bcm.edu	hg19	17	26495650	26495650	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	NLK	NM_016231	exon6	c.A1014T	p.R338S	ACGAAGAATATTG	.	123.0	9.0	86.0	0.0	.	88	.	.	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	hg19	17	76481047	76481047	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	DNAH17	NM_173628	exon48	c.G7552C	p.V2518L	AGTAGACGAGCTT	.	96.0	10.0	64.0	0.0	.	347	.	.	Atlas-SNP
APCDD1	147495	hgsc.bcm.edu	hg19	18	10485748	10485748	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	APCDD1,NS,carcinoma,0,1	APCDD1	NM_153000	exon4	c.G1064T	p.R355M	CGTCCAGGGTCAT	.	60.0	3.0	62.0	0.0	.	57	.	.	Atlas-SNP
MUM1	84939	hgsc.bcm.edu	hg19	19	1360549	1360549	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	MUM1	NM_032853	exon5	c.A632G	p.N211S	ACAAAAATTGGAC	.	175.0	50.0	149.0	0.0	.	54	.	.	Atlas-SNP
RYR1	6261	hgsc.bcm.edu	hg19	19	39025793	39025793	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	RYR1	NM_000540	exon80	c.C11372A	p.A3791D	CAGGTGCCATGGT	.	27.0	6.0	25.0	0.0	.	708	.	.	Atlas-SNP
ZNF222	7673	hgsc.bcm.edu	hg19	19	44529605	44529605	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	ZNF222	NM_001129996	exon1	c.A17G	p.E6G	CAGGAGAAAAGAA	.	76.0	30.0	63.0	0.0	.	90	.	.	Atlas-SNP
MARK4	57787	hgsc.bcm.edu	hg19	19	45797639	45797639	+	Silent	SNP	A	A	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	MARK4	NM_001199867	exon14	c.A1527G	p.R509R	CCGCAGAAACACC	.	112.0	43.0	90.0	0.0	.	132	.	.	Atlas-SNP
ATF5	22809	hgsc.bcm.edu	hg19	19	50434173	50434173	+	Silent	SNP	A	A	C	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	ATF5	NM_012068	exon3	c.A66C	p.G22G	GCTGGGATGGCTC	.	150.0	55.0	146.0	0.0	.	27	.	.	Atlas-SNP
SAMHD1	25939	hgsc.bcm.edu	hg19	20	35540887	35540887	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	SAMHD1	NM_015474	exon10	c.A1131C	p.K377N	GCCAACTTTGTGT	.	102.0	25.0	79.0	0.0	.	62	.	.	Atlas-SNP
TTC3	7267	hgsc.bcm.edu	hg19	21	38510935	38510935	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	TTC3	NM_001001894	exon19	c.A1580G	p.Q527R	GACAGCAATTGAA	.	207.0	27.0	131.0	0.0	.	182	.	.	Atlas-SNP
UMODL1	89766	hgsc.bcm.edu	hg19	21	43531035	43531035	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	UMODL1	NM_173568	exon11	c.G1703C	p.G568A	CAACAGGGGTAAC	.	311.0	156.0	211.0	0.0	.	186	.	.	Atlas-SNP
CYTB	0	hgsc.bcm.edu	hg19	MT	14934	14934	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	.	ENST00000361789	exon1	c.T188C	p.F63S	CCGCCTTTTCATC	.	122.0	21.0	53.0	0.0	.	.	.	.	Atlas-SNP
PALM2-AKAP2	445815	hgsc.bcm.edu	hg19	9	112900409	112900411	+	In_Frame_Del	DEL	CTC	CTC	-	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	PALM2-AKAP2	NM_007203	exon8	c.2584_2586del	p.862_862del	.	.	65.0	11.0	57.0	0.0	.	117	.	.	Atlas-INDEL
UBE2D3	7323	hgsc.bcm.edu	hg19	4	103720567	103720568	+	Frame_Shift_Del	DEL	TC	TC	-	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	UBE2D3	NM_181893	exon6	c.401_402del	p.134_134del	.	.	472.0	242.0	307.0	0.0	.	25	.	.	Atlas-INDEL
HNRNPM	4670	hgsc.bcm.edu	hg19	19	8550614	8550614	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	HNRNPM	NM_005968	exon14	c.1301delT	p.I434fs	.	.	114.0	43.0	80.0	0.0	.	61	.	.	Atlas-INDEL
KIRREL	55243	hgsc.bcm.edu	hg19	1	158046019	158046019	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	KIRREL	NM_018240	exon2	c.168delC	p.D56fs	.	.	153.0	59.0	93.0	0.0	.	346	.	.	Atlas-INDEL
CNPY3	10695	hgsc.bcm.edu	hg19	6	42905826	42905827	+	Splice_Site	DEL	AG	AG	-	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	CNPY3	.	.	.	.	.	.	178.0	41.0	156.0	0.0	.	25	.	.	Atlas-INDEL
SLC2A2	6514	hgsc.bcm.edu	hg19	3	170732455	170732457	+	In_Frame_Del	DEL	GTT	GTT	-	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	GTT	GTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	SLC2A2	NM_000340	exon3	c.173_175del	p.58_59del	.	.	161.0	41.0	141.0	0.0	.	71	.	.	Atlas-INDEL
TGFBI	7045	hgsc.bcm.edu	hg19	5	135392457	135392457	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G3-AAUZ-01A-11D-A382-10	TCGA-G3-AAUZ-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d883fcad-d1c0-4b14-9e2f-450d3c75f28e	8f178264-c9f3-4f66-9b51-f31d6244ba04	.	TGFBI	NM_000358	exon12	c.1650delG	p.L550fs	.	.	225.0	38.0	297.0	0.0	.	76	.	.	Atlas-INDEL