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
.	100421113	bcgsc.ca	37	1	17077221	17077221	+	RNA	SNP	G	G	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	.	.	.	.	GGAGGAGCAGCAG		131	14	0.11	61	1	0.0163934426				0	0				
OTUD3	23252	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	20234139	20234139	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_015207	exon8	c.C1097T	p.A366V	ACAAAGCCCTGGA		96	16	0.17	58	0	0				8	1	0.13			
ADAMTSL4	54507	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	150526002	150526002	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_019032	exon6	c.C535A	p.P179T	AGCCCACCCAGAT		105	25	0.24	62	0	0				9	4	0.44			
PGLYRP4	57115	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	153303252	153303252	+	Missense_Mutation	SNP	G	G	C	rs41310915	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_020393	exon9	c.C1113G	p.F371L	GTGTTTGAAATGA		166	45	0.27	175	0	0				0	0				
PEAR1	375033	hgsc.bcm.edu	37	1	156875139	156875139	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	PEAR1,NS,haematopoietic_neoplasm,+1,2	PEAR1	NM_001080471	exon4	c.G230T	p.R77L	TGTACCGTCAGGT		29	20	0.69	15	1	0.0666666667		1	2	1	0	0.00			
LAD1	3898	broad.mit.edu	37	1	201356276	201356276	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	LAD1	NM_005558	exon3	c.C213A	p.P71P	TGGCTTGGGCACC		79	3	0.04	59	0	0		42		44	0	0.00			
ADSS	159	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	244600986	244600986	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_001126	exon2	c.A268G	p.N90D	TGACATTTGGATT		95	22	0.23	95	0	0				144	48	0.33			
UBTD1	80019	mdanderson.org	37	10	99329931	99329931	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	UBTD1,colon,carcinoma,0,2	UBTD1	NM_024954	exon3	c.G335A	p.R112H	GCAATCGCTACCA		42	3	0.07	50	0	0		0	2	72	0	0.00			
TCF7L2	6934	broad.mit.edu	37	10	114925530	114925530	+	Silent	SNP	C	C	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	TCF7L2	NM_001146274	exon14	c.C1608A	p.P536P	GCCACCCGCCCTC		126	3	0.02	124	1	0.0080645161		298		34	0	0.00			
HSPA12A	259217	mdanderson.org	37	10	118439125	118439125	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	HSPA12A,colon,carcinoma,0,1	HSPA12A	NM_025015	exon10	c.C1175A	p.A392E	GCAGCCGCCCTTT		95	5	0.05	119	0	0		0	1	3	0	0.00			
SCGB2A2	4250	mdanderson.org	37	11	62038534	62038534	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_002411	exon2	c.G237T	p.V79V	TGAGGTGTTTATG		48	3	0.06	46	0	0				0	0				
RTN3	10313	broad.mit.edu	37	11	63525788	63525788	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	RTN3	NM_001265591	exon4	c.570delT	p.A190fs	CCAAGCTTTTTTT		78	7	0.09	86	0	0		104		226	0	0.00			
TEX40	25858	mdanderson.org	37	11	64071021	64071021	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_001039496	exon3	c.G420T	p.E140D	GGCAGAGCAGCAG		43	3	0.07	64	0	0				9	0	0.00			
PC	5091	mdanderson.org	37	11	66639190	66639190	+	Missense_Mutation	SNP	G	G	T	rs368549197		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_000920	exon4	c.C289A	p.L97M	TGTGCAGGTAGGC		26	2	0.08	29	0	0				29	0	0.00			
TCIRG1	10312	mdanderson.org	37	11	67818066	67818066	+	Missense_Mutation	SNP	G	G	T	rs370231613	alternate_allele	TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_006019	exon19	c.G2349T	p.M783I	CGTGATGACCGTG		34	3	0.09	51	0	0				56	0	0.00			
UVRAG	7405	mdanderson.org	37	11	75852429	75852429	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	UVRAG,NS,carcinoma,+1,1	UVRAG	NM_003369	exon15	c.G2072A	p.R691H	GCTTCCGCCGGCC		32	3	0.09	44	0	0		1	1	55	0	0.00			
FAT3	120114	broad.mit.edu;mdanderson.org	37	11	92086050	92086050	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	FAT3_ENST00000409404,NS,carcinoma,0,8	FAT3	NM_001008781	exon1	c.C772T	p.R258C	ATTGAGCGCATAA		92	4	0.04	127	0	0		1822	8	1	0	0.00			
MLL2	8085	broad.mit.edu	37	12	49444814	49444814	+	Silent	SNP	A	A	G	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	MLL2_ENST00000301067,NS,carcinoma,0,1	MLL2	NM_003482	exon10	c.T2652C	p.P884P	AGGGGGAGGGAAC		138	5	0.04	122	0	0		1173	1	6	0	0.00			
.	0	broad.mit.edu	37	14	20138372	20138372	+	RNA	DEL	G	G	-	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	.	.	.	.	ACAAAAGAAAGAA		16	7	0.44	12	0	0				0	0				
GOLGA6L1	283767	broad.mit.edu	37	15	22743373	22743373	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	GOLGA6L1	NM_001001413	exon8	c.G1758C	p.K586N	GGAGAAGATACGA		24	3	0.13	33	0	0		20		0	0				
GOLGA8S	653061	hgsc.bcm.edu	37	15	23606532	23606532	+	RNA	SNP	C	C	G	rs62001550		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	.	.	.	.	GAGCAGCAGGAGA		8	4	0.50	8	0	0				0	0				
HERC2	8924	broad.mit.edu	37	15	28459392	28459392	+	Missense_Mutation	SNP	G	G	A	rs138059246	bycluster;byfrequency	TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	HERC2,NS,carcinoma,0,1	HERC2	NM_004667	exon41	c.C6385T	p.R2129C	GCGGGCGCACCCT		31	4	0.13	43	1	0.023255814		501	1	10	0	0.00			
SLC12A6	9990	mdanderson.org	37	15	34549912	34549912	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_133647	exon5	c.C621A	p.R207R	TGTAAGGCGTAAA		53	3	0.06	74	0	0				7	0	0.00			
MYO1E	4643	mdanderson.org	37	15	59453379	59453379	+	Missense_Mutation	SNP	C	C	T	rs202237883	bycluster	TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_004998	exon24	c.G2678A	p.G893D	CGGGAGCCCCCTG		38	3	0.08	48	0	0				77	0	0.00			
SMAD6	4091	broad.mit.edu	37	15	66996088	66996090	+	In_Frame_Del	DEL	GCT	GCT	-	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	GCT	GCT					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	SMAD6	NM_005585	exon1	c.492_494del	p.164_165del	CTCGCGGCTGCTG		6	2	0.33	6	0	0		14		3	0	0.00			
COX5A	9377	hgsc.bcm.edu;bcgsc.ca;mdanderson.org	37	15	75219171	75219171	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_004255	exon3	c.C275A	p.A92D	CGCAAAGCAGCAT		100	5	0.05	86	0	0				3045	1	0.00			
PDPK1	5170	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	16	2647685	2647685	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_002613	exon14	c.G1588A	p.G530R	CCCAGCGGGAACG		144	41	0.28	146	0	0				62	24	0.39			
SRRM2	23524	hgsc.bcm.edu;bcgsc.ca;mdanderson.org	37	16	2819139	2819139	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_016333	exon12	c.C7875T	p.S2625S	CTCCTCCTCTTCT		94	8	0.09	70	0	0				971	5	0.01			
RABEP2	79874	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	16	28925902	28925902	+	Silent	SNP	A	A	C	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_024816	exon5	c.T549G	p.R183R	CCGGGGACGTCTC		41	7	0.17	63	0	0				34	6	0.18			
TGFB1I1	7041	broad.mit.edu	37	16	31484850	31484850	+	Silent	SNP	T	T	C	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	TGFB1I1	NM_001042454	exon2	c.T102C	p.P34P	CACCCCTCCCCCA		37	8	0.22	37	4	0.1081081081		60		21	0	0.00			
CIAPIN1	57019	mdanderson.org	37	16	57463161	57463161	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_020313	exon9	c.G860A	p.S287N	GGGCAGCTGGCAC		52	3	0.06	40	0	0				536	0	0.00			
OR1A1	8383	hgsc.bcm.edu;bcgsc.ca	37	17	3118967	3118967	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_014565	exon1	c.C53G	p.T18S	GAGTTACTGGTCA		79	4	0.05	94	0	0				0	0				
ALOX15	246	mdanderson.org	37	17	4535309	4535309	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_001140	exon13	c.C1684T	p.R562W	GCAGCCGCATCGT		42	3	0.07	64	0	0				1	0	0.00			
KCTD11	147040	mdanderson.org	37	17	7256675	7256675	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	KCTD11,NS,carcinoma,0,1	KCTD11	NM_001002914	exon1	c.G414T	p.R138R	TTTGCGGGCCCGA		42	3	0.07	56	0	0		0	1	10	0	0.00			
PIK3R5	23533	mdanderson.org	37	17	8808104	8808104	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_001142633	exon5	c.C402A	p.L134L	GGCCTTGAGTTCA		43	3	0.07	61	0	0				12	0	0.00			
MYO18A	399687	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	27401817	27401817	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_078471	exon42	c.G6136A	p.E2046K	TGGCCTCTGTGTC		166	32	0.19	144	0	0				115	19	0.17			
GIT1	28964	mdanderson.org	37	17	27903296	27903296	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_001085454	exon15	c.C1580A	p.P527H	CCAAAGGGCTTCA		47	3	0.06	42	0	0				144	0	0.00			
CCL18	6362	broad.mit.edu	37	17	34398343	34398343	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	CCL18	NM_002988	exon3	c.C212T	p.A71V	TCTGTGCTGACCC		375	6	0.02	285	0	0		9		8	0	0.00			
KRTAP4-7	100132476	hgsc.bcm.edu	37	17	39240805	39240805	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	KRTAP4-7,caecum,carcinoma,+1,1	KRTAP4-7	NM_033061	exon1	c.G347T	p.R116L	GCTGCCGCCCCTG		50	7	0.14	37	0	0		1	1	0	0				
.	0	broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	43625492	43625492	+	RNA	SNP	G	G	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	.	.	.	.	GGAGATGGTTTAA		538	75	0.14	370	2	0.0054054054				2	0	0.00			
AMZ2P1	0	broad.mit.edu	37	17	62968690	62968690	+	RNA	SNP	A	A	G	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	.	.	.	.	TTCCACAAGTCTC		114	4	0.04	71	1	0.014084507				67	0	0.00			
CAPS	828	mdanderson.org	37	19	5914617	5914617	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_080590	exon3	c.G127T	p.A43S	CTGGACGCTGATG		49	3	0.06	61	0	0				14	0	0.00			
ICAM3	3385	ucsc.edu	37	19	10444835	10444835	+	Splice_Site	SNP	C	C	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	ICAM3	NM_002162	exon7	c.1441+1G>T	.	AGCTCACCCTCAA		37	4	0.11	40	0	0		29		9	0	0.00			
TYK2	7297	mdanderson.org	37	19	10468498	10468498	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_003331	exon17	c.C2408A	p.T803N	AGGAGGGTGGCGC		52	3	0.06	75	0	0				22	0	0.00			
ZBTB32	27033	mdanderson.org	37	19	36206029	36206029	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_014383	exon2	c.G501T	p.K167N	GCACAAGCACTCG		38	3	0.08	46	0	0				5	0	0.00			
CAPNS1	826	mdanderson.org	37	19	36632054	36632054	+	Silent	SNP	C	C	T	rs17879825		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_001749	exon2	c.C141T	p.G47G	CGGCGGCGGTGGT		113	6	0.05	95	2	0.0210526316	0.006			2	0	0.00			
TRMT61B	55006	mdanderson.org	37	2	29093089	29093089	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_017910	exon1	c.G55C	p.G19R	TGGTTCCGAGCCC		24	3	0.13	23	0	0				66	0	0.00			
DYSF	8291	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	71783195	71783195	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_001130982	exon23	c.G2252T	p.G751V	TCGCAGGCTGCAG		90	28	0.31	78	0	0				46	8	0.17			
TEKT4	150483	mdanderson.org	37	2	95540628	95540628	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_144705	exon4	c.T821C	p.L274P	GCATCCTTCGCGA		24	3	0.13	30	0	0				0	0				
FBLN7	129804	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	2	112896249	112896250	+	Frame_Shift_Del	DEL	CG	CG	-	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	CG	CG					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	FBLN7	NM_153214	exon1	c.16_17del	p.6_6del	GCTCTCCGCGCGC		118	19	0.16	123	0	0		49		1	0	0.00			
SMPD4	55627	mdanderson.org	37	2	130910298	130910298	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_017951	exon20	c.C2431T	p.R811C	GGAAGCGCAGGCT		70	4	0.06	67	1	0.0149253731				249	0	0.00			
GRB14	2888	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	165353738	165353738	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_004490	exon11	c.G1277T	p.S426I	GCAGAGCTCTGTG		188	45	0.24	201	0	0				14	6	0.43			
CXCR1	3577	hgsc.bcm.edu	37	2	219029115	219029115	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_000634	exon2	c.C820A	p.Q274K	TCTCCTGGATCAC		119	5	0.04	95	0	0				0	0				
SPHKAP	80309	mdanderson.org	37	2	228883882	228883882	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	SPHKAP,larynx,carcinoma,+1,1	SPHKAP	NM_030623	exon7	c.A1688G	p.Q563R	GCCACCTGAGTCA		52	3	0.06	47	0	0		1	1	0	0				
DIS3L2	129563	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	233194705	233194705	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_152383	exon15	c.A1922G	p.N641S	CCCTCAATGTGAG		80	26	0.33	80	0	0				20	6	0.30			
MYLK2	85366	broad.mit.edu	37	20	30418685	30418685	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	MYLK2	NM_033118	exon9	c.G1288A	p.A430T	GGCCTGGCACGGA		164	5	0.03	159	0	0		76		1	0	0.00			
PCIF1	63935	mdanderson.org	37	20	44567735	44567735	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_022104	exon3	c.C97T	p.P33S	CCAAAGCCAATCC		54	3	0.06	52	0	0				58	0	0.00			
FAM3B	54097	mdanderson.org	37	21	42694879	42694879	+	Missense_Mutation	SNP	G	G	A	rs371282791		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_058186	exon2	c.G49A	p.A17T	GTCTTCGCCTCCT		26	3	0.12	23	0	0				1	0	0.00			
SLC37A1	54020	broad.mit.edu	37	21	43974235	43974235	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	SLC37A1	NM_018964	exon11	c.G832A	p.E278K	AAGAGCGAAAAGA		43	4	0.09	24	2	0.0833333333		48		17	0	0.00			
MCM3AP	8888	hgsc.bcm.edu;mdanderson.org	37	21	47664965	47664965	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	MCM3AP,caecum,carcinoma,-1,2	MCM3AP	NM_003906	exon23	c.C4794T	p.G1598G	AAGACCGCCCAGA		121	5	0.04	119	0	0		-1	2	130	0	0.00			
PCNT	5116	broad.mit.edu	37	21	47831434	47831434	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	PCNT	NM_006031	exon28	c.C5447A	p.A1816D	GCCAGGCCCTGGA		39	4	0.10	36	1	0.0277777778		283		21	2	0.10			
PEX26	55670	hgsc.bcm.edu	37	22	18568023	18568023	+	Silent	SNP	A	A	G	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_001127649	exon4	c.A813G	p.P271P	TGATCCAGGTAAG		96	4	0.04	70	0	0				132	0	0.00			
.	728441	broad.mit.edu	37	22	21563143	21563143	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	.	.	.	.	TCCTGGCCCACCA		131	7	0.05	54	0	0				2	0	0.00			
C22orf43	51233	broad.mit.edu	37	22	23974156	23974156	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	C22orf43	NM_016449	exon1	c.A55G	p.K19E	CGTCCTTCCCCCT		247	7	0.03	150	3	0.02		18		1	0	0.00			
UQCR10	29796	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	30163557	30163557	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_001003684	exon1	c.C170T	p.P57L	CCATCCCTGACCT		58	16	0.28	92	0	0				121	36	0.30			
GGA1	26088	mdanderson.org	37	22	38019586	38019586	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_001001560	exon9	c.C778T	p.R260W	CGGATGCGGCCCA		86	4	0.05	91	0	0				68	0	0.00			
HDAC10	83933	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	22	50688078	50688081	+	Frame_Shift_Del	DEL	AAAG	AAAG	-	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	AAAG	AAAG					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	HDAC10	NM_032019	exon6	c.547_550del	p.183_184del	ATCCTCAAAGAGA		69	15	0.22	69	0	0		29		27	0	0.00			
CAMKV	79012	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	49899544	49899552	+	In_Frame_Del	DEL	TTCTTGCAG	TTCTTGCAG	-	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	TTCTTGCAG	TTCTTGCAG					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	CAMKV	NM_024046	exon3	c.154_162del	p.52_54del	TGGAACTTCTTGC		80	22	0.28	78	0	0		84		68	30	0.44			
STAB1	23166	mdanderson.org	37	3	52557127	52557127	+	Missense_Mutation	SNP	G	G	A	rs372724948		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_015136	exon63	c.G6997A	p.A2333T	GCCACTGCCAACT		23	3	0.13	34	0	0				38	0	0.00			
SDAD1	55153	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	76882374	76882374	+	Silent	SNP	G	G	A	rs143777133		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_018115	exon15	c.C1269T	p.H423H	ATCCTTGTGTGTT		117	35	0.30	125	0	0	0			161	70	0.43			
.	0	broad.mit.edu	37	5	6674476	6674477	+	RNA	INS	-	-	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	.	.	.	.	ATCTATTAAAAAA		6	2	0.33	4	0	0				1	0	0.00			
CTNND2	1501	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	11397161	11397161	+	Silent	SNP	C	C	T	rs61749784	bycluster;byfrequency;by1000genomes	TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_001332	exon6	c.G594A	p.T198T	CTGGCCCGTAGCT		63	24	0.38	50	0	0	0.002			0	0				
NKX2-5	0	broad.mit.edu;bcgsc.ca;mdanderson.org	37	5	172659730	172659730	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	NKX2-5	NM_004387	exon2	c.G817A	p.A273T	GGTAAGCGGCAGT		73	24	0.33	88	1	0.0113636364		42		0	0				
GPRIN1	114787	broad.mit.edu;mdanderson.org	37	5	176024694	176024694	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	GPRIN1	NM_052899	exon2	c.T2142G	p.S714R	CTCCAGACTCAGG		33	8	0.24	35	0	0		77		8	1	0.13			
HK3	3101	hgsc.bcm.edu;broad.mit.edu;mdanderson.org	37	5	176316733	176316733	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_002115	exon7	c.G643A	p.D215N	CCACGTCGATGTT		48	7	0.15	49	0	0				2	0	0.00			
PRR7-AS1	340037	hgsc.bcm.edu	37	5	176867681	176867681	+	RNA	SNP	C	C	T	rs372493562		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	.	.	.	.	TCTGACCGTTGCC		98	18	0.18	82	0	0				0	0				
NUP153	9972	mdanderson.org	37	6	17688695	17688695	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_005124	exon2	c.C266T	p.A89V	TCATCGGCATATA		133	5	0.04	99	1	0.0101010101				105	0	0.00			
BTN2A3P	54718	hgsc.bcm.edu;broad.mit.edu	37	6	26422353	26422353	+	RNA	SNP	C	C	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	BTN2A3,NS,carcinoma,0,9	BTN2A3	.	.	.	.	ATGGAACCAGCTG		114	10	0.09	81	1	0.012345679		0	9	2	0	0.00			
KLHDC3	116138	broad.mit.edu	37	6	42985386	42985386	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	KLHDC3	NM_057161	exon3	c.G284T	p.R95L	GCGGGCGGAATGA		105	5	0.05	95	0	0		23		362	0	0.00			
PKHD1	5314	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	51512912	51512912	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_138694	exon63	c.G11315A	p.R3772Q	ACTCTTCGATTCT		80	21	0.26	81	0	0				0	0				
IRAK1BP1	134728	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	79577463	79577463	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	IRAK1BP1	NM_001010844	exon1	c.G170A	p.G57D	TAAGCGGCACCTC		87	26	0.30	96	1	0.0104166667		18		7	3	0.43			
OPRM1	4988	mdanderson.org	37	6	154428665	154428665	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_001145286	exon4	c.G1230A	p.G410G	TGCAGGGCAGTCT		53	3	0.06	58	0	0				0	0				
RABGEF1	27342	ucsc.edu	37	7	66270306	66270306	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	A	A					Unknown	Untested	Somatic		RNA-Seq	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	RABGEF1	NM_014504	exon8	c.A1000G	p.N334D	CAGTCTAATATCC		163	4	0.02	87	0	0		56		119	14	0.12	rescued with RNA-seq		
GTF2IRD2P1	0	broad.mit.edu	37	7	72663998	72663998	+	RNA	SNP	T	T	G	rs2539034	bycluster	TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	.	.	.	.	CCGGGGTCCTTGA		187	6	0.03	100	1	0.01				0	0				
SRPK2	6733	broad.mit.edu	37	7	104844187	104844187	+	Silent	SNP	C	C	T	rs150640356		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	SRPK2	NM_182692	exon3	c.G117A	p.P39P	TGGTGGCGGTGGA		117	6	0.05	74	1	0.0135135135		76		83	0	0.00			
XRCC2	7516	broad.mit.edu;mdanderson.org	37	7	152357797	152357797	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	XRCC2	NM_005431	exon2	c.C110A	p.S37X	ACAGGTGAATCTT		80	5	0.06	50	0	0		30		47	0	0.00			
WRN	7486	hgsc.bcm.edu	37	8	30945390	30945390	+	Missense_Mutation	SNP	A	A	T	rs149565907	bycluster;by1000genomes	TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	WRN,NS,carcinoma,0,1	WRN	NM_000553	exon12	c.A1530T	p.E510D	AGAAGAAGATGAT		62	3	0.05	53	0	0	0.001	0	1	20	0	0.00			
YTHDF3	253943	broad.mit.edu	37	8	64099415	64099415	+	Silent	SNP	A	A	G	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	YTHDF3	.	.	.	.	TGAAAAAGGGTCA		152	3	0.02	139	2	0.0143884892		13		130	0	0.00			
MAPK15	225689	broad.mit.edu	37	8	144803971	144803971	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	MAPK15,bladder,carcinoma,-1,1	MAPK15	NM_139021	exon13	c.C1379T	p.A460V	AGGCTGCGGCTCA		87	3	0.03	71	0	0		32	1	3	0	0.00			
GNAQ	2776	mdanderson.org	37	9	80537095	80537095	+	Nonsense_Mutation	SNP	G	G	T	rs200106152	by1000genomes	TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_002072	exon2	c.C303A	p.Y101X	ATACTTGTATGGG		71	4	0.06	47	0	0	0			18	0	0.00			
SPATA31D1	389763	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	84609192	84609192	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_001001670	exon4	c.G3807A	p.K1269K	ACAGAAGCAGGAG		85	29	0.34	56	0	0				0	0				
FAM206A	54942	broad.mit.edu	37	9	111696846	111696846	+	Splice_Site	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_017832	exon1	c.79+1G>T	.	AACCGGGTAAGTG		188	5	0.03	189	0	0				0	0				
TRIM32	22954	mdanderson.org	37	9	119460603	119460603	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_012210	exon2	c.G582T	p.R194S	GCGCAGGGTCCAG		49	3	0.06	38	0	0				17	0	0.00			
DENND1A	57706	broad.mit.edu;bcgsc.ca;mdanderson.org	37	9	126144051	126144051	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	DENND1A	NM_020946	exon22	c.G2690A	p.G897D	ATCTGGCCAAAGA		173	28	0.16	184	1	0.0054347826		112		8	1	0.13			
MAGEB10	139422	mdanderson.org	37	X	27840132	27840132	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	.	NM_182506	exon3	c.G709T	p.E237X	GGAATTGAGCACT		43	3	0.07	53	0	0				0	0				
ATRX	546	broad.mit.edu	37	X	76855029	76855029	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	ATRX	NM_000489	exon25	c.A5807G	p.K1936R	TTCCCCTTTTTCC		294	6	0.02	232	0	0		833		42	0	0.00			
CTAG2	30848	broad.mit.edu	37	X	153881676	153881676	+	Silent	SNP	A	A	C	rs370709312		TCGA-2G-AAGO-01A-11D-A42Y-10	TCGA-2G-AAGO-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	95579513-5f16-4bdc-bf4c-4d4d76a3d069	ce86540c-8488-46d3-9a6f-591f2f3b5be7	.	CTAG2	NM_020994	exon1	c.T114G	p.G38G	CGTGGCACCCGCC		45	24	0.53	38	11	0.2894736842		88		1	0	0.00			
