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_SOL	TVarCov_SOL	TVaf_SOL	NTotCov_SOL	NVarCov_SOL	NVaf_SOL	dbSNPPopFreq	COSMIC_Gene_Freq	COSMIC_Site_Freq	Ttot_rna	Tvar_rna	Tvaf_rna	note	germline-maf-frequency	IGV
LRRC47	57470	mdanderson.org	37	1	3712537	3712537	+	Silent	SNP	A	A	G	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_020710	exon1	c.T504C	p.F168F	GGCGGGAAAGGAG		29	4	0.14	42	2	0.0476190476				76	0	0.00			
EPB41	2035	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	29359661	29359661	+	Silent	SNP	C	C	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_001166006	exon9	c.C1269T	p.Y423Y	GGTTTACAAAGAT		97	36	0.37	137	0	0				55	23	0.42			
HIVEP3	59269	mdanderson.org	37	1	42049570	42049570	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_024503	exon4	c.C899A	p.P300Q	GGTCTTGGGGAGA		48	3	0.06	65	0	0				0	0				
GFI1	2672	mdanderson.org	37	1	92946383	92946383	+	Silent	SNP	T	T	C	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_001127215	exon4	c.A561G	p.A187A	GGCCCCTGCGCTG		16	2	0.13	11	0	0				0	0				
EDEM3	80267	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	184706178	184706178	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_025191	exon4	c.A326G	p.D109G	AAAGAATCAATCA		305	95	0.31	355	0	0				21	7	0.33			
HMCN1	83872	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	186151356	186151356	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_031935	exon105	c.G16351A	p.G5451R	ACCTTTGGAAGTT		233	63	0.27	229	0	0				44	7	0.16			
KIF21B	23046	ucsc.edu	37	1	200974451	200974451	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	KIF21B	NM_017596	exon5	c.C717A	p.C239X	CTGGGTGCACATG		28	4	0.14	27	0	0		208		6	0	0.00			
KISS1	3814	hgsc.bcm.edu;broad.mit.edu;mdanderson.org	37	1	204159651	204159651	+	Silent	SNP	C	C	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_002256	exon3	c.G378A	p.A126A	TGGTGCCGCCTCC		62	4	0.06	74	0	0				6	0	0.00			
SLC30A1	7779	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	211751852	211751852	+	Silent	SNP	G	G	A	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_021194	exon1	c.C103T	p.L35L	TCGCCAGCGACGA		53	17	0.32	57	0	0				27	10	0.37			
CHST3	9469	mdanderson.org	37	10	73768166	73768166	+	Silent	SNP	C	C	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_004273	exon3	c.C1377T	p.A459A	GGACGCCGCCGCC		31	3	0.10	55	0	0				5	0	0.00			
SEC24C	9632	broad.mit.edu;mdanderson.org	37	10	75519799	75519799	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	SEC24C	NM_004922	exon6	c.G505T	p.A169S	GCTTCAGCCTCAG		47	3	0.06	94	0	0		86		119	0	0.00			
FFAR4	338557	mdanderson.org	37	10	95326725	95326725	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	O3FAR1,NS,carcinoma,+1,1	O3FAR1	NM_001195755	exon1	c.G248T	p.C83F	TCTTCTGCGCGGA		43	3	0.07	79	0	0		1	1	1	0	0.00			
C10orf129	142827	mdanderson.org	37	10	96988497	96988497	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_207321	exon11	c.G1399T	p.G467C	TGGTCTGGTAGAG		46	3	0.07	82	0	0				2	0	0.00			
PDCD11	22984	mdanderson.org	37	10	105160234	105160234	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	PDCD11,NS,carcinoma,0,1	PDCD11	NM_014976	exon3	c.G183T	p.K61N	CGAAAAGAGAGAA		39	3	0.08	86	0	0		0	1	46	0	0.00			
GPR123	84435	mdanderson.org	37	10	134912177	134912177	+	Silent	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_001083909	exon4	c.G165T	p.T55T	GCACACGCTCCTG		33	3	0.09	44	0	0				3	0	0.00			
PHRF1	57661	mdanderson.org	37	11	607812	607812	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_020901	exon14	c.G2353T	p.A785S	AACATGGCACATT		59	4	0.07	75	0	0				78	0	0.00			
ATG2A	23130	mdanderson.org	37	11	64679873	64679873	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_015104	exon7	c.G848A	p.G283D	AGGGAGCCCAGCT		20	3	0.15	62	0	0				27	0	0.00			
MAP3K11	4296	mdanderson.org	37	11	65367071	65367071	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_002419	exon9	c.C2000A	p.P667Q	CGTCCTGGGCCTC		20	2	0.10	28	0	0				17	0	0.00			
RBM14	10432	mdanderson.org	37	11	66392959	66392959	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_006328	exon2	c.G1612T	p.A538S	GCTGCTGCCTCCT		47	3	0.06	69	1	0.0144927536				173	0	0.00			
RBM4B	83759	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	66436560	66436560	+	Silent	SNP	G	G	A	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_031492	exon3	c.C615T	p.Y205Y	TTCCCCGTAGCCC		78	34	0.44	164	0	0				43	26	0.60			
DLG2	1740	mdanderson.org	37	11	84996380	84996380	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_001142699	exon4	c.C70A	p.L24I	AATTTAGCAATGT		50	4	0.08	92	0	0				2	0	0.00			
DDX25	29118	mdanderson.org	37	11	125787112	125787112	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_013264	exon9	c.G1004T	p.S335I	ATGGCAGCATCAC		41	3	0.07	61	0	0				7	0	0.00			
UTP20	27340	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	101763603	101763603	+	Silent	SNP	G	G	A	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	UTP20,NS,carcinoma,0,1	UTP20	NM_014503	exon49	c.G6489A	p.L2163L	TCTGCTGAAGGAC		95	6	0.06	91	0	0		0	1	51	5	0.10			
PSMB11	122706	mdanderson.org	37	14	23511880	23511880	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_001099780	exon1	c.C446T	p.A149V	CCACTGCCCTCTG		37	3	0.08	52	0	0				0	0				
MAP2K5	5607	mdanderson.org	37	15	67835784	67835784	+	Silent	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_002757	exon1	c.G111T	p.P37P	CGGGCCGCAGTTA		55	3	0.05	91	0	0				44	0	0.00			
NEIL1	79661	ucsc.edu	37	15	75646087	75646087	+	Silent	SNP	A	A	G	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	A	A					Unknown	Untested	Somatic		RNA-Seq	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	NEIL1	NM_001256552	exon6	c.A984G	p.K328K	GGGCAAAGGCTAC		85	1	0.01	85	0	0		36		20	9	0.45			
ADAMTS17	170691	mdanderson.org	37	15	100821452	100821452	+	Silent	SNP	G	G	T	rs143055688	bycluster;by1000genomes;alternate_allele	TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_139057	exon4	c.C771A	p.I257I	GGTCAGGATGAAC		24	3	0.13	21	0	0				9	0	0.00			
MRPS34	65993	mdanderson.org	37	16	1822889	1822889	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_023936	exon1	c.C232A	p.R78S	CCAGGCGGCCCAG		11	2	0.18	11	0	0				104	0	0.00			
PKD1	5310	mdanderson.org	37	16	2165409	2165409	+	Silent	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_001009944	exon10	c.C2067A	p.S689S	GGGAACGGAGAAG		36	3	0.08	53	0	0				90	0	0.00			
SRRM2	23524	broad.mit.edu	37	16	2817298	2817298	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	SRRM2	NM_016333	exon11	c.G6769T	p.A2257S	AACCTGGCTGACT		70	6	0.09	64	2	0.03125		263		858	50	0.06			
ABCC6P1	0	broad.mit.edu	37	16	18597596	18597596	+	RNA	DEL	A	A	-	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	.	.	.	.	CGTATCAAAAAAA		8	2	0.25	8	0	0				0	0				
.	0	bcgsc.ca	37	16	33408500	33408500	+	RNA	DEL	C	C	-	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	.	.	.	.	GGAAGTCCCACCT		82	16	0.20	84	0	0				1	0	0.00			
OR1D5	8386	broad.mit.edu	37	17	2966569	2966569	+	Silent	SNP	G	G	A	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	OR1D5	NM_014566	exon1	c.C333T	p.D111D	GAGGTTGTCCAGG		354	25	0.07	394	0	0		33		1	0	0.00			
OR1D4	653166	broad.mit.edu;bcgsc.ca	37	17	3144302	3144302	+	RNA	SNP	C	C	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	.	.	.	.	CCTGGACAACCTC		290	72	0.25	343	0	0				0	0				
MYH10	4628	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	17	8404192	8404193	+	Frame_Shift_Del	DEL	GT	GT	-	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	GT	GT					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	MYH10	NM_001256012	exon29	c.3696_3697del	p.1232_1233del	TGTTGCGTGTCTT		80	27	0.34	68	0	0		148		336	0	0.00			
TVP23C	0	ucsc.edu	37	17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic		RNA-Seq	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_145301	exon3	c.G152A	p.C51Y	AGAAGACAGACGA		176	10	0.06	262	18	0.0687022901				84	44	0.52			
MYO18A	399687	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	17	27441062	27441063	+	Frame_Shift_Del	DEL	CA	CA	-	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	CA	CA					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	MYO18A	NM_078471	exon15	c.2565_2566del	p.855_856del	AGCAGCCACAGAG		53	18	0.34	75	0	0		217		30	0	0.00			
ABHD15	116236	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	17	27893554	27893554	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_198147	exon1	c.G431A	p.C144Y	CGAACACAAGGTC		72	21	0.29	52	0	0				18	3	0.17			
PTRF	284119	mdanderson.org	37	17	40556822	40556822	+	Silent	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_012232	exon2	c.C1056A	p.G352G	CTCCGCGCCGCCC		61	3	0.05	67	0	0				255	1	0.00			
.	0	broad.mit.edu	37	17	45131453	45131453	+	RNA	SNP	G	G	C	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	.	.	.	.	CATTGTGAGATAC		192	5	0.03	253	0	0				19	0	0.00			
C17orf64	124773	mdanderson.org	37	17	58504167	58504167	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_181707	exon4	c.G418A	p.A140T	CAGCCGGCCAAGT		48	3	0.06	30	0	0				0	0				
C17orf70	80233	broad.mit.edu;mdanderson.org	37	17	79517782	79517782	+	Silent	SNP	A	A	G	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	C17orf70	NM_025161	exon3	c.T738C	p.P246P	GCCATCAGGGAGA		51	3	0.06	71	0	0		79		122	0	0.00			
EMILIN2	84034	mdanderson.org	37	18	2891184	2891184	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_032048	exon4	c.G1059T	p.Q353H	CCAGCAGCAGTGT		43	3	0.07	62	1	0.0161290323				22	0	0.00			
ZFR2	23217	broad.mit.edu	37	19	3827569	3827569	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	ZFR2	NM_015174	exon6	c.C935A	p.P312Q	CCGCGCGGGCTCC		171	4	0.02	176	0	0		63		1	0	0.00			
COL5A3	50509	broad.mit.edu	37	19	10097403	10097403	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	COL5A3	NM_015719	exon28	c.A2177G	p.E726G	CCTTTCTCCCCCT		152	13	0.09	173	7	0.0404624277		243		43	0	0.00			
ZNF653	115950	mdanderson.org	37	19	11616497	11616497	+	Silent	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_138783	exon1	c.C105A	p.G35G	CGGCCGGCCCCGC		10	3	0.30	11	0	0				6	0	0.00			
DDX49	54555	mdanderson.org	37	19	19035692	19035692	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_019070	exon9	c.G931T	p.G311C	TCCAGGGGCCTGG		27	3	0.11	41	0	0				157	0	0.00			
SPTBN4	57731	mdanderson.org	37	19	41009747	41009747	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_020971	exon12	c.G1373T	p.G458V	ACTTTGGGTATGA		42	3	0.07	56	0	0				3	0	0.00			
KLC3	147700	mdanderson.org	37	19	45849859	45849859	+	Missense_Mutation	SNP	C	C	T	rs372402110		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_177417	exon3	c.C316T	p.R106C	CGGCTGCGCTCGC		20	3	0.15	30	0	0				5	0	0.00			
NOSIP	51070	ucsc.edu	37	19	50060501	50060501	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	NOSIP,NS,carcinoma,0,1	NOSIP	NM_015953	exon6	c.C264A	p.Y88X	CTTCTCGTAGGCC		35	4	0.11	46	0	0		28	1	263	0	0.00			
POLD1	5424	mdanderson.org	37	19	50910291	50910291	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_002691	exon13	c.G1546T	p.A516S	AAGGATGCCTACC		46	3	0.07	46	0	0				73	0	0.00			
U2AF2	11338	mdanderson.org	37	19	56180496	56180496	+	Silent	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_001012478	exon10	c.G993T	p.L331L	GCTGCTGGTCCAG		49	3	0.06	91	0	0				610	0	0.00			
NBAS	51594	broad.mit.edu	37	2	15359012	15359012	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	NBAS,NS,carcinoma,-1,1	NBAS	NM_015909	exon48	c.G6317A	p.R2106H	TGAATGCGGGGCC		202	4	0.02	259	0	0		246	1	103	0	0.00			
APOB	338	broad.mit.edu	37	2	21224911	21224911	+	Silent	SNP	T	T	C	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	APOB	NM_000384	exon29	c.A13383G	p.K4461K	TTTCCCTTTTCCA		148	3	0.02	165	1	0.0060606061		761		16	0	0.00			
AGBL5	60509	mdanderson.org	37	2	27276346	27276346	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_001035507	exon3	c.C292T	p.Q98X	AACAAGCAGAGCA		84	5	0.06	84	0	0				138	0	0.00			
SH2D6	284948	hgsc.bcm.edu;bcgsc.ca	37	2	85662140	85662149	+	Frame_Shift_Del	DEL	CCCCACCCCA	CCCCACCCCA	-	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	CCCCACCCCA	CCCCACCCCA					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	SH2D6	NM_198482	exon1	c.61_70del	p.21_24del	GCCCACCCCCACC		277	40	0.14	354	0	0		15		0	0				
COX5B	1329	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	98264520	98264520	+	Silent	SNP	C	C	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_001862	exon4	c.C339T	p.C113C	GCGATGCCCCCGC		277	72	0.26	330	0	0				624	221	0.35			
VWA3B	200403	mdanderson.org	37	2	98914394	98914394	+	Missense_Mutation	SNP	G	G	T	rs146321928	bycluster;by1000genomes;alternate_allele	TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_144992	exon24	c.G3182T	p.R1061L	TGAGCCGCACCCA		53	3	0.06	55	0	0				0	0				
.	0	bcgsc.ca	37	2	130987132	130987132	+	RNA	SNP	C	C	T	rs77736556	bycluster;byfrequency	TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	.	.	.	.	AAAGGCCGTGCCT		62	9	0.15	39	0	0				1	0	0.00			
MCM6	4175	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	2	136633830	136633830	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_005915	exon1	c.G106A	p.E36K	CTTACTCCTCCAA		35	12	0.34	47	0	0				111	35	0.32			
MIR548N	100302152	mdanderson.org	37	2	179367197	179367197	+	RNA	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	.	.	.	.	AAAAAAGTTATCT		49	3	0.06	64	0	0				0	0				
TMEM169	92691	broad.mit.edu	37	2	216965047	216965047	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	TMEM169	NM_001142310	exon4	c.G676T	p.G226C	TCCCTCGGCCTCT		136	4	0.03	167	0	0		46		6	0	0.00			
ESPNL	339768	mdanderson.org	37	2	239009324	239009324	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_194312	exon1	c.G264T	p.W88C	GTGCTGGCTGGTC		16	2	0.13	14	0	0				0	0				
BCL2L1	598	broad.mit.edu	37	20	30309595	30309595	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	BCL2L1	NM_138578	exon2	c.T427C	p.F143L	AGAAAAAGGCCAC		220	3	0.01	240	1	0.0041666667		23		412	1	0.00			
HELZ2	85441	mdanderson.org	37	20	62198924	62198924	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_001037335	exon7	c.C1787A	p.P596H	GCCTCGGGGTGGC		46	3	0.07	43	0	0				18	0	0.00			
MICAL3	57553	broad.mit.edu	37	22	18314645	18314645	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	MICAL3	NM_015241	exon21	c.C3030A	p.D1010E	CTCCTCGTCATAG		86	3	0.03	144	0	0		53		4	0	0.00			
ZBTB11	27107	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	101371663	101371663	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_014415	exon9	c.A2429C	p.Y810S	TGGGAATACCAAT		69	21	0.30	91	0	0				47	14	0.30			
GATA2	2624	mdanderson.org	37	3	128200738	128200738	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_032638	exon5	c.C1067A	p.T356N	GTGGTGGTTGTCG		101	5	0.05	113	0	0				323	0	0.00			
PLXND1	23129	mdanderson.org	37	3	129275264	129275264	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	PLXND1,caecum,carcinoma,-1,1	PLXND1	NM_015103	exon36	c.C5669A	p.A1890D	AGCGCGGCCATGA		104	5	0.05	103	0	0		-1	1	579	0	0.00			
SI	6476	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	164777693	164777693	+	Silent	SNP	T	T	C	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_001041	exon10	c.A1143G	p.P381P	TACAAATGGTATG		93	31	0.33	82	0	0				14	4	0.29			
SDHAP2	0	broad.mit.edu	37	3	195398365	195398365	+	RNA	SNP	T	T	G	rs202222949	bycluster	TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	.	.	.	.	CCAGTTTCTTTCT		6	3	0.50	8	0	0				0	0				
ZNF732	654254	hgsc.bcm.edu	37	4	265103	265103	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	ZNF732_ENST00000419098,NS,carcinoma,0,1	ZNF732_ENST00000419098	NM_001137608	exon3	c.A1540G	p.T514A	GGTATGTGGACCA		100	4	0.04	115	1	0.0086956522		0	1	3	0	0.00			
PHOX2B	8929	mdanderson.org	37	4	41747890	41747890	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_003924	exon3	c.C879A	p.S293R	TAGGACGCTGGCG		47	3	0.06	69	0	0				0	0				
CENPE	1062	mdanderson.org	37	4	104070563	104070563	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_001813	exon27	c.C3399A	p.S1133R	TTGCTGGCTCTTA		33	3	0.09	62	1	0.0161290323				12	0	0.00			
TRPC3	7222	broad.mit.edu;bcgsc.ca	37	4	122853966	122853966	+	Missense_Mutation	SNP	G	G	T	rs199887234	alternate_allele	TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	TRPC3	NM_001130698	exon2	c.C447A	p.N149K	CAGCGCGTTCTGG		104	6	0.06	160	0	0		201		2	0	0.00			
ARHGAP10	79658	broad.mit.edu;bcgsc.ca;mdanderson.org	37	4	148802993	148802993	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	ARHGAP10	NM_024605	exon10	c.A944G	p.D315G	AGGGGGACGGAGA		56	4	0.07	82	0	0		92		36	0	0.00			
MOCS2	4338	mdanderson.org	37	5	52404454	52404454	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_176806	exon2	c.C38T	p.A13V	CTTTTTGCAAAAT		45	3	0.07	79	0	0				94	0	0.00			
TTC37	9652	mdanderson.org	37	5	94803686	94803686	+	Silent	SNP	G	G	T	rs372395062	alternate_allele	TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_014639	exon42	c.C4504A	p.R1502R	GACGCCGTGTCTC		41	3	0.07	79	0	0				152	0	0.00			
CAMK4	814	mdanderson.org	37	5	110730442	110730442	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_001744	exon5	c.G421T	p.A141S	CGAGATGCTGCAG		43	3	0.07	87	1	0.0114942529				17	0	0.00			
ADAM19	8728	hgsc.bcm.edu	37	5	156915307	156915307	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_033274	exon21	c.C2516A	p.P839Q	GGAATTGGCCGGC		88	4	0.05	137	0	0				32	0	0.00			
ABCF1	23	mdanderson.org	37	6	30552321	30552321	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_001025091	exon14	c.C1369T	p.R457C	GGCTGGCGCATGC		48	3	0.06	45	0	0				139	0	0.00			
NELFE	7936	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	6	31922436	31922437	+	Frame_Shift_Del	DEL	TC	TC	-	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	TC	TC					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_002904	exon7	c.638_639del	p.213_213del	TCTCTGTCTCTGT		133	23	0.17	130	0	0				399	0	0.00			
COL12A1	1303	mdanderson.org	37	6	75798829	75798829	+	Silent	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_004370	exon64	c.C9003A	p.G3001G	TGGGGGGCCAGGC		38	3	0.08	49	0	0				242	1	0.00			
FERD3L	222894	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	19184670	19184670	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	FERD3L,NS,carcinoma,0,1	FERD3L	NM_152898	exon1	c.G316A	p.A106T	TGTTGGCGGCCTG		104	37	0.36	108	0	0		0	1	0	0				
GTF2IRD2P1	0	broad.mit.edu	37	7	72663998	72663998	+	RNA	SNP	T	T	G	rs2539034	bycluster	TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	.	.	.	.	CCGGGGTCCTTGA		113	3	0.03	110	1	0.0090909091				0	0				
.	30816	ucsc.edu;bcgsc.ca	37	7	92098776	92098776	+	Missense_Mutation	SNP	C	C	T	rs10266695	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	.	.	.	.	ACATAACTGTATA		13	4	0.31	72	1	0.0138888889				0	0				
MEPCE	56257	mdanderson.org	37	7	100028001	100028001	+	Silent	SNP	C	C	G	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_019606	exon1	c.C360G	p.G120G	AGGGGGCGGGACA		15	3	0.20	10	0	0				8	0	0.00			
PCOLCE	5118	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	7	100203305	100203305	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_002593	exon5	c.G595A	p.A199T	GTCATCGCGCTGA		204	58	0.28	237	0	0				1555	459	0.30			
FOXP2	93986	mdanderson.org	37	7	114270000	114270000	+	Silent	SNP	G	G	A	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	FOXP2,NS,carcinoma,0,6	FOXP2	NM_148898	exon6	c.G612A	p.Q204Q	ACAACAGCAGCAG		18	2	0.11	28	0	0		0	6	42	1	0.02			
REPIN1	29803	mdanderson.org	37	7	150068974	150068974	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_001099695	exon3	c.G815T	p.R272L	GGCCCCGGCCCAG		36	3	0.08	37	0	0				91	0	0.00			
ZHX2	22882	broad.mit.edu	37	8	123966158	123966158	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	ZHX2	NM_014943	exon3	c.C2408T	p.A803V	AGGATGCGATCTC		165	5	0.03	148	0	0		106		62	0	0.00			
PRSS3	5646	ucsc.edu	37	9	33798037	33798037	+	Silent	SNP	T	T	C	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	T	T					Unknown	Untested	Somatic		RNA-Seq	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	PRSS3_ENST00000361005,NS,carcinoma,0,3	PRSS3	NM_007343	exon3	c.T582C	p.T194T	TGGCACTGAGTGC		100	3	0.03	125	0	0		79	3	45	30	0.67	rescued with RNA-seq		
.	441420	bcgsc.ca	37	9	45376198	45376198	+	RNA	SNP	G	G	A	rs146422224		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	.	.	.	.	CGGCTCGCGGACC		43	7	0.16	38	0	0				0	0				
LOC100132352	0	bcgsc.ca	37	9	68728891	68728891	+	RNA	SNP	C	C	T	rs68081132	bycluster;byfrequency	TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	.	.	.	.	AGAAACCCAGCTT		70	8	0.11	103	3	0.0291262136				226	3	0.01			
SPTAN1	6709	mdanderson.org	37	9	131337577	131337577	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_003127	exon5	c.G604T	p.E202X	GCTCATGAAGAAA		45	4	0.09	64	0	0				67	0	0.00			
RNR2	0	broad.mit.edu	37	MT	1868	1868	+	RNA	SNP	G	G	A	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	.	.	.	.	TAACTAGAAATAA		4	4	1.00	14	0	0				0	0				
FAM9A	171482	mdanderson.org	37	X	8763195	8763195	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_174951	exon7	c.G755A	p.G252E	CCTCCTCCTTCTT		36	3	0.08	18	0	0				0	0				
SPIN2A	54466	broad.mit.edu	37	X	57162583	57162583	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	SPIN2A	NM_019003	exon2	c.A448G	p.M150V	AGACCATCCCCCT		667	7	0.01	389	1	0.0025706941		7		0	0				
ARHGAP4	393	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	X	153174596	153174596	+	Silent	SNP	G	G	T	novel		TCGA-SN-A84W-01A-11D-A435-10	TCGA-SN-A84W-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	7cc41d24-e0f3-46ee-a8a3-52a28666742b	b4c25462-07cf-4f0c-a865-a6dcc36a802b	.	.	NM_001164741	exon22	c.C2655A	p.A885A	TCCCATGGCCTCA		61	5	0.08	40	0	0				70	0	0.00			
