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
AHDC1	27245	mdanderson.org	37	1	27875938	27875938	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_001029882	exon6	c.C2689A	p.P897T	CCACTGGGCTGGC		41	3	0.07	57	0	0				48	0	0.00			
EPHA10	284656	mdanderson.org	37	1	38227156	38227156	+	Silent	SNP	G	G	T	rs140939937	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_173641	exon3	c.C771A	p.G257G	GTCGGCGCCGCAG		18	2	0.11	15	0	0				0	0				
SEC22B	9554	broad.mit.edu	37	1	145109259	145109260	+	RNA	INS	-	-	A	rs11386827	bycluster;by1000genomes	TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	.	.	.	.	CCAGCCCGGGGGC		7	2	0.29	7	0	0				0	0				
SKIDA1	387640	mdanderson.org	37	10	21805737	21805737	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_207371	exon4	c.C1015A	p.H339N	GGTGGTGGTGGTG		20	3	0.15	23	0	0				9	1	0.11			
PTCHD3	374308	broad.mit.edu	37	10	27702322	27702322	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	PTCHD3	NM_001034842	exon1	c.C858A	p.P286P	GTAGGCGGGGAAG		78	3	0.04	80	0	0		140		0	0				
BMS1	9790	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	10	43312871	43312871	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_014753	exon15	c.G2509C	p.D837H	ATGTTTGATGCAG		53	19	0.36	58	0	0				78	32	0.41			
.	0	bcgsc.ca	37	10	67008403	67008403	+	RNA	SNP	G	G	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	.	.	.	.	TTCCTGGATCTTC		47	20	0.43	60	0	0				0	0				
MICU1	10367	mdanderson.org	37	10	74128106	74128106	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_001195518	exon12	c.C1278A	p.G426G	CAGTTCGCCATTG		58	3	0.05	59	0	0				100	0	0.00			
PDLIM1	9124	bcgsc.ca	37	10	97006973	97006973	+	Silent	SNP	T	T	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	PDLIM1	NM_020992	exon5	c.A684G	p.K228K	ATTACCTTTTTCT		64	4	0.06	56	0	0		33		279	0	0.00			
WNT8B	7479	mdanderson.org	37	10	102242248	102242248	+	Missense_Mutation	SNP	G	G	T	rs143970308	alternate_allele	TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_003393	exon6	c.G731T	p.R244L	CTACCCGGGAGCT		8	1	0.13	13	0	0				0	0				
FBXW4	6468	bcgsc.ca	37	10	103371159	103371159	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	FBXW4	NM_022039	exon9	c.G1128A	p.P376P	CGTCAGCGGGAAG		55	4	0.07	68	0	0		39		186	0	0.00			
MUC2	4583	mdanderson.org	37	11	1093342	1093342	+	Missense_Mutation	SNP	C	C	A	rs55695633	alternate_allele	TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	MUC2_ENST00000441003,NS,carcinoma,-2,2	MUC2_ENST00000441003	NM_002457	exon30	c.C5161A	p.P1721T	CCAACCCCGACAC		36	3	0.08	38	0	0		-2	2	0	0				
LOC650368	0	broad.mit.edu	37	11	3424836	3424836	+	RNA	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	.	.	.	.	ACAACTGACTCTT		273	6	0.02	375	2	0.0053333333				0	0				
PGAP2	27315	mdanderson.org	37	11	3845201	3845201	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_001256236	exon5	c.C608T	p.S203L	TGCACTCGGCGCC		48	3	0.06	67	1	0.0149253731				47	0	0.00			
ARHGAP1	392	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	46717282	46717282	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_004308	exon3	c.G157C	p.E53Q	CAAGTTCCGGGGA		111	36	0.32	114	0	0				67	18	0.27			
TENM4	26011	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	78380844	78380844	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_001098816	exon32	c.G6546A	p.K2182K	TCCTACCTTCAGC		160	56	0.35	212	0	0				16	10	0.63			
PICALM	8301	mdanderson.org	37	11	85701308	85701308	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_007166	exon13	c.C1393A	p.H465N	TTTCATGAGTAGG		36	3	0.08	61	0	0				13	0	0.00			
FAT3	120114	hgsc.bcm.edu;mdanderson.org	37	11	92535075	92535075	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_001008781	exon9	c.G8896T	p.G2966X	ATTACAGGTGAGT		92	4	0.04	115	0	0				0	0				
ELMOD1	55531	broad.mit.edu	37	11	107521086	107521086	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	ELMOD1	NM_018712	exon8	c.G580T	p.A194S	GCCACAGCAGCTC		66	3	0.05	93	0	0		40		2	0	0.00			
FAM118B	79607	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	126126463	126126463	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_024556	exon7	c.G698C	p.R233T	TCCAGAGAGAAAT		47	17	0.36	53	0	0				41	21	0.51			
GPR162	27239	broad.mit.edu	37	12	6933730	6933730	+	Silent	SNP	T	T	G	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	GPR162	NM_019858	exon2	c.T666G	p.G222G	GGGTGGTGGGGGG		189	26	0.14	55	7	0.1272727273		55		0	0				
GYS2	2998	broad.mit.edu	37	12	21690032	21690032	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	GYS2,NS,carcinoma,0,1	GYS2	NM_021957	exon16	c.C1968A	p.S656R	ATCACTGCTCTGA		978	7	0.01	392	1	0.0025510204		110	1	0	0				
FGD4	121512	broad.mit.edu	37	12	32764204	32764204	+	Missense_Mutation	SNP	G	G	T	rs281865063	alternate_allele	TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	FGD4,NS,carcinoma,0,1	FGD4	NM_139241	exon10	c.G1325T	p.R442L	AAGAACGCTACCT		272	4	0.01	107	0	0		86	1	5	0	0.00			
CPSF6	11052	broad.mit.edu	37	12	69646900	69646900	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	CPSF6	NM_007007	exon3	c.340delT	p.F114fs	ATAAAATTTTTTG		2833	7	0.00	513	0	0		96		70	0	0.00			
MIR620	693205	hgsc.bcm.edu	37	12	116586420	116586420	+	RNA	SNP	A	A	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	.	.	.	.	CTATATATATATA		422	26	0.06	365	0	0				0	0				
NCOR2	9612	broad.mit.edu	37	12	124887093	124887093	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	NCOR2_ENST00000405201,NS,carcinoma,0,11	NCOR2	NM_006312	exon16	c.G1497A	p.Q499Q	CTGCTGCTGTTGT		63	3	0.05	54	0	0		475	11	39	0	0.00			
STOML3	161003	mdanderson.org	37	13	39542579	39542579	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_145286	exon6	c.C609A	p.S203S	TGCCATGGATCTC		39	3	0.08	61	0	0				1	0	0.00			
.	0	broad.mit.edu	37	13	52855307	52855308	+	RNA	DEL	GC	GC	-	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	GC	GC					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	.	.	.	.	GTGTGTGCGCGCG		7	3	0.43	4	0	0				0	0				
HERC2	8924	broad.mit.edu	37	15	28483779	28483779	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	HERC2	NM_004667	exon24	c.G3717T	p.Q1239H	CTGTGTCTGGAAG		530	7	0.01	465	0	0		501		3	0	0.00			
NEIL1	79661	ucsc.edu	37	15	75646086	75646086	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic		RNA-Seq	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	NEIL1	NM_001256552	exon6	c.A983G	p.K328R	GGGGCAAAGGCTA		82	2	0.02	83	0	0		36		13	10	0.77	rescued with RNA-seq		
SOLH	6650	mdanderson.org	37	16	602443	602443	+	Missense_Mutation	SNP	G	G	A	rs148952789		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_005632	exon11	c.G2650A	p.V884I	TGCGACGTCATGC		34	3	0.09	30	0	0	0			34	0	0.00			
UBN1	29855	mdanderson.org	37	16	4924755	4924755	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_001079514	exon15	c.A2344G	p.K782E	AAAGCTAAGCACC		44	3	0.07	41	0	0				25	0	0.00			
CDR2	1039	broad.mit.edu	37	16	22359014	22359014	+	Silent	SNP	G	G	T	rs372632705	alternate_allele	TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	CDR2	NM_001802	exon5	c.C637A	p.R213R	TCTGCCGCTCCAG		128	3	0.02	122	0	0		34		73	0	0.00			
ZNF629	23361	mdanderson.org	37	16	30793488	30793488	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_001080417	exon3	c.C2161A	p.Q721K	AGCTTTGTTTGCA		56	4	0.07	61	0	0				29	0	0.00			
CES2	8824	broad.mit.edu	37	16	66974255	66974255	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	CES2	NM_003869	exon4	c.T746C	p.F249S	GCTTCTTCAGGTG		182	3	0.02	120	1	0.0083333333		43		68	0	0.00			
ANKRD11	29123	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	16	89347466	89347466	+	Silent	SNP	C	C	T	rs140164595		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_001256183	exon9	c.G5484A	p.S1828S	TTCCATCGAGGGT		56	25	0.45	41	0	0	0			92	33	0.36			
CDK10	8558	mdanderson.org	37	16	89762054	89762054	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_052988	exon13	c.C1037T	p.A346V	AGCGGGCCGCCCC		41	3	0.07	30	0	0				238	1	0.00			
FBXW10	10517	broad.mit.edu	37	17	18659367	18659367	+	Missense_Mutation	SNP	A	A	G	rs3826385	bycluster	TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	FBXW10,NS,carcinoma,0,1	FBXW10	NM_001267585	exon6	c.A1132G	p.N378D	GAGTACAACCTGT		175	47	0.27	113	1	0.0088495575		82	1	0	0				
FBXW10	10517	broad.mit.edu;mdanderson.org	37	17	18673363	18673363	+	Splice_Site	SNP	T	T	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	FBXW10	NM_001267585	exon11	c.T1971C	p.G657G	CAGAGGTGATCCT		178	10	0.06	205	1	0.0048780488		82		0	0				
CDRT15L2	256223	bcgsc.ca	37	17	20483760	20483760	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	CDRT15L2	NM_001190790	exon2	c.C564G	p.D188E	CGGAGACCAGGGC		168	89	0.53	108	8	0.0740740741		5		0	0				
SUPT6H	6830	broad.mit.edu;bcgsc.ca;mdanderson.org	37	17	27026839	27026839	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	SUPT6H	NM_003170	exon33	c.C4489T	p.R1497W	CGGTACCGGGGCC		136	5	0.04	98	0	0		165		202	0	0.00			
SLFN14	342618	broad.mit.edu	37	17	33875849	33875849	+	Silent	SNP	A	A	G	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	SLFN14	NM_001129820	exon4	c.T2148C	p.L716L	AGGGGGAAGGCCA		140	3	0.02	109	0	0		43		0	0				
AOC2	314	broad.mit.edu	37	17	40997660	40997660	+	Silent	SNP	C	C	T	rs149144895	bycluster;byfrequency;by1000genomes	TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	AOC2	NM_009590	exon1	c.C1017T	p.S339S	GTTCAGCGGCCTG		282	6	0.02	219	0	0		61		3	0	0.00			
KIF2B	84643	broad.mit.edu	37	17	51902397	51902397	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	KIF2B,right_upper_lobe,carcinoma,+1,1	KIF2B	NM_032559	exon1	c.T2003C	p.V668A	TCCACGTGAAGAG		83	5	0.06	84	0	0		254	1	0	0				
C17orf58	284018	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	65989082	65989082	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_181656	exon2	c.G181C	p.V61L	GACCTACAGCCCG		285	83	0.29	213	0	0				9	3	0.33			
SOCS3	0	broad.mit.edu;bcgsc.ca;mdanderson.org	37	17	76354724	76354724	+	Silent	SNP	C	C	T	rs371734270		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	SOCS3	NM_003955	exon2	c.G453A	p.P151P	GGCAGACGGCTGC		76	19	0.25	90	1	0.0111111111		16		221	58	0.26			
CARD14	79092	broad.mit.edu	37	17	78172269	78172269	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	CARD14	NM_024110	exon13	c.A1730G	p.D577G	AGGGGGATGCATT		191	4	0.02	130	1	0.0076923077		98		2	0	0.00			
DSC2	1824	broad.mit.edu	37	18	28671012	28671012	+	Silent	SNP	A	A	G	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	DSC2	NM_024422	exon4	c.T453C	p.P151P	TGGAAAAGGACCC		203	4	0.02	103	0	0		168		47	0	0.00			
GALR1	2587	mdanderson.org	37	18	74962637	74962637	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_001480	exon1	c.G133T	p.A45S	ATCTTCGCGCTGG		30	2	0.07	61	1	0.0163934426				1	0	0.00			
ADAMTSL5	339366	mdanderson.org	37	19	1506169	1506169	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_213604	exon12	c.G1261A	p.A421T	GGGGTGCCAGCAT		59	4	0.07	56	0	0				11	0	0.00			
MAP1S	55201	mdanderson.org	37	19	17837039	17837039	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_018174	exon5	c.G846T	p.L282L	GCACCTGGACCGC		57	3	0.05	52	0	0				100	0	0.00			
IRGQ	126298	mdanderson.org	37	19	44097051	44097051	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	IRGQ,colon,carcinoma,0,1	IRGQ	NM_001007561	exon3	c.C999A	p.G333G	GCCCTCGCCGTCT		39	3	0.08	60	0	0		0	1	6	0	0.00			
RPL18	6141	mdanderson.org	37	19	49118703	49118703	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_000979	exon7	c.C493A	p.P165T	CGTAGGGTCTGTG		51	3	0.06	86	0	0				6036	3	0.00			
DBP	1628	mdanderson.org	37	19	49136911	49136911	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_001352	exon3	c.C552A	p.G184G	GGTCAGGCCTTGG		46	3	0.07	31	0	0				21	0	0.00			
NLRP12	91662	hgsc.bcm.edu;broad.mit.edu;mdanderson.org	37	19	54304502	54304502	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	NLRP12,caecum,carcinoma,0,1	NLRP12	NM_144687	exon7	c.T2735A	p.L912H	TTGCACGTGGGAT		50	4	0.08	79	0	0		0	1	2	0	0.00			
TMEM86B	255043	mdanderson.org	37	19	55739615	55739615	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_173804	exon2	c.T242A	p.L81H	CACACAAGGGCTC		51	3	0.06	55	0	0				17	0	0.00			
MYADML	0	broad.mit.edu	37	2	33951855	33951858	+	RNA	DEL	AGAG	AGAG	-	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	AGAG	AGAG					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	.	.	.	.	AACAAAAGAGAGA		10	7	0.70	11	0	0				0	0				
EPAS1	2034	broad.mit.edu	37	2	46605215	46605215	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	EPAS1	NM_001430	exon10	c.A1432T	p.S478C	AGCAGCAGCTGCT		89	4	0.04	54	0	0		83		29	0	0.00			
WASH2P	0	broad.mit.edu	37	2	114355768	114355769	+	RNA	INS	-	-	GCCC	rs61637331		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	.	.	.	.	GGCCCTGTCCCCG		7	2	0.29	14	0	0				5	0	0.00			
TMEM194B	100131211	mdanderson.org	37	2	191383892	191383892	+	Silent	SNP	T	T	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_001142645	exon3	c.A231G	p.P77P	CAGGCCTGGACTG		48	3	0.06	66	0	0				4	0	0.00			
MFF	56947	broad.mit.edu	37	2	228211978	228211978	+	Silent	SNP	T	T	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	MFF	NM_020194	exon8	c.T630C	p.P210P	CTGTCCTCCCCAT		172	3	0.02	171	0	0		48		63	0	0.00			
ADAM33	80332	mdanderson.org	37	20	3653452	3653452	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_025220	exon12	c.G1227A	p.P409P	GGGGTCCGGGGCA		18	2	0.11	25	0	0				4	0	0.00			
APCDD1L	164284	mdanderson.org	37	20	57045759	57045759	+	Missense_Mutation	SNP	G	G	A	rs147147447	bycluster	TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_153360	exon2	c.C94T	p.R32C	CCCAGCGCAGGCA		44	3	0.07	40	0	0	0			1	0	0.00			
ZNF512B	57473	mdanderson.org	37	20	62594730	62594730	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_020713	exon11	c.C1762T	p.L588L	GCTTCAGCACCTT		24	2	0.08	18	0	0				36	0	0.00			
ANKRD20A11P	0	broad.mit.edu	37	21	15352291	15352291	+	RNA	SNP	A	A	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	.	.	.	.	CTTTTCACCTCCC		31	10	0.32	29	11	0.3793103448				0	0				
RIBC2	26150	bcgsc.ca	37	22	45813494	45813494	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	RIBC2	.	.	.	.	AAATGAGGCAAAA		171	6	0.04	185	0	0		25		5	0	0.00			
PKDREJ	10343	hgsc.bcm.edu;broad.mit.edu;mdanderson.org	37	22	46658471	46658471	+	Missense_Mutation	SNP	G	G	T	rs149432283	bycluster;byfrequency;alternate_allele	TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_006071	exon1	c.C749A	p.P250Q	GCGGCCGGGCAGT		67	4	0.06	62	0	0				0	0				
SHANK3	85358	ucsc.edu;bcgsc.ca	37	22	51117453	51117453	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	SHANK3	NM_033517	exon6	c.C607T	p.L203L	ACCCTGCTGGACC		29	4	0.14	35	0	0		96		15	0	0.00			
SLC22A13	9390	bcgsc.ca;mdanderson.org	37	3	38317788	38317788	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	SLC22A13,right_upper_lobe,carcinoma,+1,2	SLC22A13	NM_004256	exon8	c.G1248T	p.V416V	GCCCGTGGTGGTC		86	5	0.06	86	0	0		42	2	0	0				
EPHA6	285220	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	96706454	96706454	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_001080448	exon3	c.C731T	p.T244I	TCGACACAATTGC		172	41	0.24	186	0	0				2	1	0.50			
HCLS1	3059	broad.mit.edu	37	3	121354648	121354648	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	HCLS1	NM_005335	exon9	c.G625A	p.A209T	CGACAGCGCTCTG		98	3	0.03	64	0	0		78		124	0	0.00			
YEATS2	55689	broad.mit.edu	37	3	183493770	183493770	+	Silent	SNP	A	A	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	YEATS2,colon,carcinoma,0,2	YEATS2	NM_018023	exon18	c.A2436C	p.G812G	AGGAGGAGGCGGC		40	3	0.08	31	0	0		111	2	0	0				
MUC4	4585	bcgsc.ca	37	3	195505805	195505805	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	MUC4	NM_018406	exon2	c.T12646G	p.S4216A	ATGCTGAGGAAGT		153	9	0.06	134	2	0.0149253731		1505		0	0				
MUC4	4585	bcgsc.ca	37	3	195508165	195508165	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	MUC4	NM_018406	exon2	c.G10286A	p.S3429N	GAAGTGCTGGTGA		264	15	0.06	191	4	0.0209424084		1505		0	0				
UCHL1	7345	mdanderson.org	37	4	41259027	41259027	+	Splice_Site	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_004181	exon1	c.33+1G>T	.	CCCGAGGTGAGCG		96	4	0.04	127	2	0.0157480315				2	0	0.00			
.	0	bcgsc.ca	37	4	49244875	49244875	+	RNA	SNP	T	T	A	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	.	.	.	.	GAAGAGTGCTGAG		7	4	0.57	29	3	0.1034482759				1	0	0.00			
.	0	bcgsc.ca	37	4	49244932	49244932	+	RNA	SNP	C	C	T	rs201474862	bycluster	TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	.	.	.	.	TCATTGCTATTTT		11	7	0.64	19	0	0				0	0				
LARP1B	55132	mdanderson.org	37	4	129019452	129019452	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	LARP1B_ENST00000427266,NS,carcinoma,+2,2	LARP1B_ENST00000427266	NM_178043	exon8	c.G780T	p.Q260H	TGTTCAGGCTCTC		92	4	0.04	76	0	0		2	2	29	0	0.00			
ZFP42	132625	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	188924033	188924033	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_174900	exon4	c.G72A	p.G24G	CAGTGGGGCTAAG		169	77	0.46	211	0	0				8	2	0.25			
FER	2241	broad.mit.edu	37	5	108168539	108168539	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	FER	NM_005246	exon4	c.G276T	p.L92F	GGACTTGAACTCT		241	7	0.03	290	1	0.0034482759		100		3	0	0.00			
PCDHB8	56128	hgsc.bcm.edu	37	5	140559196	140559196	+	Silent	SNP	G	G	T	rs146788088	alternate_allele	TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	PCDHB8,NS,carcinoma,+1,1	PCDHB8	NM_019120	exon1	c.G1581T	p.A527A	GCAGGCGTTCGAG		78	4	0.05	85	2	0.0235294118		1	1	0	0				
TNIP1	10318	mdanderson.org	37	5	150439917	150439917	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_001252385	exon5	c.C397A	p.Q133K	AATTCTGCTCCTC		47	3	0.06	42	0	0				169	0	0.00			
MTCH1	23787	mdanderson.org	37	6	36953795	36953795	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_014341	exon1	c.G155T	p.R52L	GGGTGGCGAGGAT		34	3	0.09	21	0	0				211	0	0.00			
DST	667	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	56422278	56422278	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_015548	exon40	c.A6610G	p.R2204G	GTTGTCTATCAAT		142	43	0.30	154	0	0				1	0	0.00			
MAP3K7	6885	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	91254350	91254350	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	MAP3K7_ENST00000369329,NS,carcinoma,-1,1	MAP3K7_ENST00000369329	NM_145331	exon12	c.C1212A	p.A404A	GGAATAGGCTGCA		188	60	0.32	154	0	0		-1	1	19	6	0.32			
UST	10090	broad.mit.edu	37	6	149262435	149262435	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	UST	NM_005715	exon3	c.G312T	p.Q104H	AAGCCAGGTGGTG		209	4	0.02	195	0	0		42		4	0	0.00			
SDK1	221935	mdanderson.org	37	7	4198179	4198179	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_152744	exon31	c.G4725T	p.Q1575H	GCTGCAGGATGGT		52	3	0.06	38	0	0				26	0	0.00			
DAGLB	221955	broad.mit.edu	37	7	6485734	6485734	+	Splice_Site	SNP	A	A	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	DAGLB	NM_139179	exon2	c.T97G	p.W33G	CAATCCACCTGGC		112	35	0.31	71	21	0.2957746479		74		20	0	0.00			
MYO1G	64005	broad.mit.edu	37	7	45016249	45016249	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	MYO1G	NM_033054	exon3	c.T312G	p.S104R	TGCCCCACTCTCC		175	8	0.05	154	6	0.038961039		86		1	0	0.00			
GIGYF1	64599	mdanderson.org	37	7	100280727	100280727	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_022574	exon19	c.C2320A	p.L774I	CCAGGAGCGTCTT		35	3	0.09	22	0	0				100	0	0.00			
LHFPL3	375612	mdanderson.org	37	7	103969251	103969251	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	LHFPL3,NS,carcinoma,0,1	LHFPL3	NM_199000	exon1	c.C24T	p.A8A	CGCTGCCGCCGCC		51	3	0.06	39	0	0		0	1	0	0				
LRGUK	136332	broad.mit.edu	37	7	133943050	133943050	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	LRGUK,NS,carcinoma,+1,1	LRGUK	NM_144648	exon19	c.G2240T	p.R747L	TGTTTCGGTTCTG		295	6	0.02	206	0	0		113	1	0	0				
PRSS3P2	0	broad.mit.edu	37	7	142480429	142480430	+	RNA	INS	-	-	AC	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	.	.	.	.	GCAATTATCAGGA		6	2	0.33	4	0	0				0	0				
ZNF775	285971	broad.mit.edu;mdanderson.org	37	7	150094605	150094605	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	ZNF775	NM_173680	exon3	c.T1036C	p.F346L	CGCGGCTTCCGCC		14	5	0.36	10	0	0		34		21	4	0.19			
MLL3	58508	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	7	152012230	152012230	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	MLL3_ENST00000355193,NS,carcinoma,0,2	MLL3_ENST00000355193	NM_170606	exon4	c.C583T	p.Q195X	TTCTCTGTCCTCT		274	71	0.26	215	0	0		0	2	0	0				
.	0	broad.mit.edu	37	8	88613386	88613386	+	RNA	DEL	T	T	-	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	.	.	.	.	TAATACTTTTTTT		6	2	0.33	7	0	0				0	0				
MLLT3	4300	hgsc.bcm.edu	37	9	20414373	20414373	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	MLLT3,NS,carcinoma,0,4	MLLT3	NM_004529	exon5	c.C471T	p.S157S	GCTGCTGCTACTG		42	4	0.10	36	1	0.0277777778		0	4	4	0	0.00			
FAM221B	392307	broad.mit.edu	37	9	35826017	35826017	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	FAM221B	NM_001012446	exon2	c.C142A	p.P48T	CTAACGGGGTCTC		101	4	0.04	84	0	0		38		0	0				
.	0	broad.mit.edu	37	9	66464851	66464851	+	RNA	DEL	A	A	-	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	.	.	.	.	AGTTTTACAAATT		6	3	0.50	9	0	0				7	0	0.00			
PALM2	445815	bcgsc.ca	37	9	112629770	112629770	+	Splice_Site	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	PALM2	NM_001037293	exon3	c.52-1G>T	.	TTTCAAGGAAAAA		62	4	0.06	48	0	0		51		0	0				
MAN1B1	11253	broad.mit.edu;mdanderson.org	37	9	140002112	140002112	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	MAN1B1	NM_016219	exon12	c.C1894T	p.R632W	TTCACACGGGTGA		39	3	0.08	24	0	0		40		209	0	0.00			
RNR1	6052	hgsc.bcm.edu	37	MT	820	820	+	RNA	SNP	G	G	A	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	.	.	.	.	ACAGCAGTGATTA		163	13	0.08	190	0	0				0	0				
CXorf28	100129464	hgsc.bcm.edu	37	X	3202175	3202175	+	RNA	SNP	A	A	G	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	.	.	.	.	ATACTAATTCTCC		106	43	0.41	90	0	0				0	0				
CTPS2	56474	broad.mit.edu	37	X	16711311	16711311	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	CTPS2	NM_001144002	exon6	c.C592A	p.Q198K	TGTTTTGGGTGGG		205	4	0.02	132	0	0		49		68	0	0.00			
CCNB3	85417	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	X	50053935	50053935	+	Silent	SNP	T	T	C	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	.	NM_033031	exon5	c.T2766C	p.N922N	CATCAATGAGGCA		214	10	0.05	162	0	0				1	0	0.00			
CYLC1	1538	broad.mit.edu	37	X	83129489	83129489	+	Silent	SNP	A	A	G	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	CYLC1	NM_021118	exon4	c.A1773G	p.K591K	TGAAAAAGGGGAA		289	4	0.01	232	0	0		272		0	0				
RNF128	79589	broad.mit.edu	37	X	105937558	105937558	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	RNF128	NM_024539	exon1	c.C326T	p.A109V	AAACAGCGGGCAG		318	4	0.01	252	0	0		74		4	0	0.00			
NKRF	55922	broad.mit.edu	37	X	118724147	118724147	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAH4-01A-12D-A42Y-10	TCGA-2G-AAH4-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	a76ac28a-7e0c-4ca4-ad0e-109bf04deac8	09fe59f5-a2c3-4148-aac8-4b370b8cfae1	.	NKRF	NM_001173487	exon4	c.C1286A	p.P429H	TAAGTGGGCTGTG		89	3	0.03	52	2	0.0384615385		121		36	0	0.00			
