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
SLC2A7	155184	broad.mit.edu;ucsc.edu	37	1	9074839	9074839	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	SLC2A7	NM_207420	exon7	c.C804A	p.H268Q	AGACAGGTGGCCC		56	16	0.29	50	1	0.02		56		0	0				
PTCHD2	57540	broad.mit.edu;ucsc.edu	37	1	11580781	11580781	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	PTCHD2	NM_020780	exon10	c.C2238T	p.F746F	GGTGTTCGCCAGC		175	20	0.11	159	1	0.0062893082		193		0	0				
PRDM2	7799	broad.mit.edu	37	1	14105124	14105124	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	PRDM2,caecum,carcinoma,0,2	PRDM2	NM_015866	exon8	c.A834T	p.E278D	GGATGAAGAAGAA		142	5	0.04	118	0	0		147	2	1	0	0.00			
CROCCP2	0	broad.mit.edu	37	1	16946455	16946456	+	RNA	INS	-	-	GCTCACGCTGCA	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	.	.	.	.	TCCTCCTGCTCAC		83	9	0.11	83	0	0				0	0				
FAM110D	79927	broad.mit.edu	37	1	26487994	26487994	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_024869	exon2	c.G212A	p.R71H	CGGTCCGCCGGGG		124	7	0.06	106	1	0.0094339623				0	0				
RPL5	6125	bcgsc.ca	37	1	93299200	93299201	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	AG	AG					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	RPL5	NM_000969	exon3	c.172_173del	p.58_58del	ACAAACAGAGATA		62	0	0.00	48	0	0		38		189	0	0.00			
DCLRE1B	64858	bcgsc.ca	37	1	114448290	114448290	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	DCLRE1B	NM_022836	exon1	c.T82A	p.F28I	CTCTTCTTCTTGT		119	0	0.00	109	0	0		36		0	0				
FAM5B	57795	bcgsc.ca	37	1	177249621	177249621	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	FAM5B	NM_021165	exon8	c.C1309T	p.L437L	ACTTTCCTGGAAC		432	0	0.00	287	0	0		191		0	0				
AXDND1	126859	broad.mit.edu	37	1	179504044	179504046	+	In_Frame_Del	DEL	AAG	AAG	-	rs10603018	alternate_allele	TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	AAG	AAG					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	AXDND1	NM_144696	exon25	c.2978_2980del	p.993_994del	AACAACAAGAAGA		333	7	0.02	238	0	0		142		10	0	0.00			
FAM5C	339479	hgsc.bcm.edu;broad.mit.edu	37	1	190068175	190068175	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	FAM5C,NS,carcinoma,+1,3	FAM5C	NM_199051	exon8	c.C1274G	p.S425W	GTGCACGAGTGCG		87	5	0.06	101	0	0		1	3	0	0				
EPRS	2058	bcgsc.ca	37	1	220151968	220151968	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	EPRS,NS,carcinoma,0,1	EPRS	NM_004446	exon28	c.C4003A	p.L1335I	CACTGAGTAATCG		126	0	0.00	105	0	0		140	1	26	0	0.00			
FAM21B	55747	bcgsc.ca	37	10	47948782	47948782	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	FAM21B	NM_018232	exon29	c.C3691T	p.P1231S	GCCGCACCTGAAC		672	1	0.00	659	0	0		31		30	0	0.00			
FSHB	2488	broad.mit.edu	37	11	30255147	30255147	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	FSHB	NM_000510	exon3	c.A190C	p.K64Q	AGGCCCAAAATCC		111	3	0.03	112	0	0		28		0	0				
ALX4	60529	broad.mit.edu	37	11	44331327	44331327	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	ALX4	NM_021926	exon1	c.A286C	p.T96P	GCGGGGTCGACGG		42	9	0.21	40	13	0.325		58		0	0				
MTA2	9219	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	62365527	62365527	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_004739	exon6	c.C459T	p.Y153Y	AGCTTGGTATTTG		112	23	0.21	128	0	0				0	0				
.	0	bcgsc.ca	37	11	62815368	62815368	+	RNA	SNP	G	G	A	rs7125680	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	.	.	.	.	GGTGCAGCATGCC		28	1	0.04	29	0	0				0	0				
MAP4K2	5871	broad.mit.edu	37	11	64566925	64566925	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	MAP4K2	NM_004579	exon14	c.C1021G	p.R341G	TCCTGCGTGGGGC		87	5	0.06	109	0	0		83		0	0				
TAS2R8	50836	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	10959286	10959286	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_023918	exon1	c.G294C	p.W98C	GGTAATCCACATA		175	22	0.13	96	0	0				0	0				
ABCC9	10060	broad.mit.edu;ucsc.edu	37	12	22061069	22061069	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	ABCC9	NM_005691	exon9	c.T1397C	p.L466P	GGCGCAAGGAGCA		506	57	0.11	303	1	0.00330033		411		0	0				
C12orf40	283461	broad.mit.edu	37	12	40040216	40040216	+	Silent	SNP	G	G	T	rs373044195	alternate_allele	TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	C12orf40,NS,carcinoma,0,1	C12orf40	NM_001031748	exon4	c.G288T	p.S96S	AATGTCGCCTCAC		197	4	0.02	143	1	0.006993007		118	1	0	0				
STAT6	6778	broad.mit.edu	37	12	57493815	57493815	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	STAT6	NM_001178079	exon14	c.T1571C	p.L524P	TTGGTGAGGTCCA		121	4	0.03	94	0	0		69		11	0	0.00			
TSC22D1	8848	broad.mit.edu	37	13	45148516	45148516	+	Silent	SNP	T	T	G	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	TSC22D1,NS,carcinoma,-2,1	TSC22D1	NM_183422	exon1	c.A1695C	p.V565V	CAGAGGTACTGGC		68	22	0.32	87	25	0.2873563218		88	1	0	0				
TPTE2P3	220115	hgsc.bcm.edu	37	13	53095190	53095190	+	RNA	SNP	G	G	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	.	.	.	.	GTTTTTGCAGCAG		179	39	0.22	216	0	0				0	0				
L2HGDH	79944	hgsc.bcm.edu	37	14	50713845	50713847	+	In_Frame_Del	DEL	AGG	AGG	-	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	AGG	AGG					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_024884	exon10	c.1322_1324del	p.441_442del	AGCAGCAGGAGAA		337	53	0.16	228	0	0				0	0				
SERPINA10	51156	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	94756510	94756510	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_001100607	exon2	c.C421T	p.L141L	AAGGCAGGAGCCC		141	16	0.11	135	0	0				0	0				
AHNAK2	113146	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	105416870	105416870	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	AHNAK2_ENST00000333244,NS,carcinoma,+2,1	AHNAK2_ENST00000333244	NM_138420	exon7	c.C4918A	p.L1640M	CCTCCAGCTGCGC		202	40	0.20	172	0	0		2	1	0	0				
DISP2	85455	bcgsc.ca	37	15	40656718	40656718	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	DISP2	NM_033510	exon4	c.G576A	p.R192R	GGCCCGGCTGCCC		83	0	0.00	54	0	0		86		0	0				
BAHD1	22893	hgsc.bcm.edu;broad.mit.edu	37	15	40750667	40750668	+	Frame_Shift_Del	DEL	AC	AC	-	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	AC	AC					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_014952	exon2	c.3_4del	p.1_2del	TCCATGACACACA		90	10	0.11	64	0	0				0	0				
EIF3J	8669	broad.mit.edu	37	15	44829415	44829415	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	EIF3J	NM_003758	exon1	c.C23G	p.A8G	CGGCGGCGGGGGA		253	8	0.03	207	2	0.0096618357		29		1	0	0.00			
MYEF2	50804	bcgsc.ca	37	15	48450208	48450208	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	MYEF2	NM_016132	exon9	c.A967G	p.K323E	GTGTTTTACCATC		253	0	0.00	176	0	0		67		0	0				
.	0	broad.mit.edu	37	15	84958415	84958426	+	RNA	DEL	CGAGGACATTGG	CGAGGACATTGG	-	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	CGAGGACATTGG	CGAGGACATTGG					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	.	.	.	.	GCACCACGAGGAC		8	2	0.25	7	2	0.2857142857				0	0				
ZNF592	9640	bcgsc.ca	37	15	85326876	85326876	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	ZNF592	NM_014630	exon4	c.A970C	p.K324Q	AGCCCCAAAATGC		133	0	0.00	146	0	0		95		0	0				
ZNF592	9640	bcgsc.ca	37	15	85327404	85327404	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	ZNF592	NM_014630	exon4	c.C1498A	p.P500T	CTCCTGCCCAAAG		73	0	0.00	68	0	0		95		1	0	0.00			
ADAMTS17	170691	broad.mit.edu	37	15	100672218	100672218	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	ADAMTS17	NM_139057	exon12	c.A1715C	p.N572T	GGGGGGTTGTCAC		83	21	0.25	55	11	0.2		127		0	0				
PRSS27	83886	broad.mit.edu	37	16	2762757	2762757	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	PRSS27	NM_031948	exon6	c.T737G	p.V246G	CTGATCACCCCCG		66	17	0.26	52	13	0.25		20		6	1	0.17			
NMRAL1	57407	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	4519318	4519318	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_020677	exon3	c.C189T	p.V63V	CATGATGACCTGG		51	12	0.24	55	0	0				71	25	0.35			
SLC12A3	6559	hgsc.bcm.edu;broad.mit.edu	37	16	56913028	56913028	+	Silent	SNP	A	A	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_001126108	exon10	c.A1224T	p.T408T	TGACACAGTGACC		93	11	0.12	74	0	0				0	0				
HSF4	3299	bcgsc.ca	37	16	67203680	67203680	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	HSF4	NM_001040667	exon15	c.T1471C	p.S491P	AGTCCCTCCCCCT		57	0	0.00	41	0	0		33		14	0	0.00			
GEMIN4	50628	broad.mit.edu	37	17	648193	648193	+	Missense_Mutation	SNP	G	G	T	rs367581258	bycluster;alternate_allele	TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	GEMIN4	NM_015721	exon2	c.C3090A	p.H1030Q	CTGCTCGTGTGCC		65	3	0.05	72	1	0.0138888889		116		83	0	0.00			
MYH8	4626	bcgsc.ca	37	17	10309436	10309436	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	MYH8,NS,carcinoma,+1,1	MYH8	NM_002472	exon21	c.C2354T	p.A785V	ATTTGGGCTAATT		114	0	0.00	89	0	0		346	1	0	0				
RHOT1	0	broad.mit.edu	37	17	30469600	30469601	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	RHOT1	.	.	.	.	GCGCGGCGGGCCC		6	2	0.33	9	0	0		69		0	0				
GPATCH8	23131	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	42513867	42513867	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_001002909	exon4	c.C240A	p.G80G	ACCCATGCCCATG		54	10	0.19	65	0	0				0	0				
USP36	57602	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	76810500	76810500	+	Silent	SNP	G	G	A	rs139221124	bycluster;byfrequency;by1000genomes	TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_025090	exon11	c.C1158T	p.Y386Y	CTTCACGTAGCAG		25	5	0.20	39	0	0	0.003			0	0				
ZFR2	23217	broad.mit.edu	37	19	3831669	3831669	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	ZFR2	NM_015174	exon4	c.C587A	p.T196N	TAGGCGGTGCAGG		40	3	0.08	23	0	0		63		0	0				
TICAM1	148022	broad.mit.edu	37	19	4817310	4817310	+	Silent	SNP	A	A	G	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	TICAM1	NM_182919	exon2	c.T1080C	p.P360P	AGGAGGAGGGGAT		130	4	0.03	88	3	0.0340909091		69		0	0				
LYPD4	147719	broad.mit.edu	37	19	42342975	42342975	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	LYPD4	NM_173506	exon3	c.C191A	p.T64K	ACTAGCGTCTCCT		98	5	0.05	50	0	0		30		0	0				
SYMPK	8189	bcgsc.ca	37	19	46345588	46345588	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	SYMPK	NM_004819	exon9	c.C1007G	p.A336G	TTGCGGGCGATCT		118	0	0.00	90	0	0		104		1	0	0.00			
RNU6-66	100873770	hgsc.bcm.edu	37	19	46753078	46753078	+	RNA	SNP	C	C	T	rs146564627	by1000genomes	TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	.	.	.	.	CCGGATCATGATC		5	4	0.80	7	0	0	0.001			0	0				
KIDINS220	57498	bcgsc.ca	37	2	8919088	8919088	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	KIDINS220	NM_020738	exon19	c.A2552G	p.N851S	CTTGCATTGCTTA		115	0	0.00	105	0	0		136		1	0	0.00			
XDH	7498	hgsc.bcm.edu;broad.mit.edu	37	2	31602747	31602747	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_000379	exon13	c.C1228T	p.P410S	TGTAGGGGATCTC		110	23	0.21	98	0	0				0	0				
MRPS5	64969	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	95753180	95753180	+	Silent	SNP	T	T	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_031902	exon12	c.A1215G	p.K405K	GTCCAGTTTGACG		130	13	0.10	113	0	0				601	143	0.24			
KANSL3	55683	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	97276835	97276835	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_001115016	exon10	c.G1127A	p.G376E	GGAAACCCAAGGC		114	20	0.18	89	0	0				0	0				
UGGT1	56886	broad.mit.edu	37	2	128865547	128865547	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	UGGT1	NM_020120	exon4	c.G313T	p.A105S	TTGGAGGCTGCAT		137	5	0.04	98	0	0		126		0	0				
.	55041	broad.mit.edu	37	2	132110862	132110862	+	Silent	SNP	G	G	C	rs370398581		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	.	.	.	.	CGCTCCGGCTCTC		50	5	0.10	39	1	0.0256410256				0	0				
NEB	4703	bcgsc.ca	37	2	152484132	152484132	+	Missense_Mutation	SNP	C	C	T	rs377180119		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	NEB	NM_001271208	exon69	c.G10048A	p.D3350N	CCACATCGCTGAC		246	0	0.00	188	0	0		1697		0	0				
TNS1	7145	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	218751314	218751314	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_022648	exon11	c.C547T	p.P183S	ACAAGGGCTTGTT		155	35	0.23	98	0	0				0	0				
ALPPL2	251	hgsc.bcm.edu	37	2	233271791	233271791	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_031313	exon2	c.G92C	p.W31S	ACTTCTGGAACCG		93	11	0.12	80	0	0				2	0	0.00			
GDF5	8200	hgsc.bcm.edu;broad.mit.edu	37	20	34025393	34025394	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_000557	exon1	c.316_317insA	p.P106fs	GCTTGGGTTCAGG		93	22	0.24	57	0	0				0	0				
ZC3H7B	23264	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	22	41742035	41742035	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_017590	exon14	c.C1488T	p.Y496Y	TAAGTACGGGGAT		56	9	0.16	51	0	0				0	0				
SELO	0	bcgsc.ca	37	22	50655406	50655406	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	.	.	.	.	GAGCCCGGCTGGA		31	0	0.00	24	0	0				103	1	0.01			
IQCF6	440956	bcgsc.ca	37	3	51812955	51812955	+	Missense_Mutation	SNP	C	C	T	rs370141442		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	IQCF6	NM_001143833	exon2	c.G8A	p.R3H	GTCCGGCGCACCA		121	0	0.00	88	0	0		2		0	0				
PRICKLE2	166336	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	64142837	64142837	+	Splice_Site	SNP	C	C	A	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_198859	exon6	c.600+1G>T	.	CTCTAACCTCATC		255	53	0.21	220	0	0				0	0				
ZPLD1	131368	broad.mit.edu	37	3	102181181	102181181	+	Silent	SNP	C	C	A	rs148150314	alternate_allele	TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	ZPLD1	NM_175056	exon6	c.C687A	p.T229T	GAAAACCAAAGTA		132	18	0.14	118	7	0.0593220339		82		0	0				
CASR	846	bcgsc.ca	37	3	122002841	122002841	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	CASR	NM_001178065	exon7	c.C2070T	p.R690R	CCTGCGCCAGCCG		98	0	0.00	85	0	0		190		0	0				
SAMD7	344658	broad.mit.edu	37	3	169644457	169644457	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	SAMD7	NM_182610	exon6	c.C407T	p.P136L	CTGCCCCCGCTGC		251	5	0.02	183	0	0		69		0	0				
MUC4	4585	broad.mit.edu	37	3	195513346	195513346	+	Missense_Mutation	SNP	A	A	G	rs79482340	bycluster;byfrequency	TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	MUC4	NM_018406	exon2	c.T5105C	p.V1702A	GAGGAAACGTCGG		418	12	0.03	386	2	0.0051813472		1505		0	0				
USP46	64854	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	53492336	53492336	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_022832	exon4	c.A410G	p.Q137R	TCCTCCTGAAGGA		168	27	0.16	144	0	0				0	0				
BMP2K	55589	hgsc.bcm.edu	37	4	79792085	79792085	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	BMP2K_ENST00000502871,NS,carcinoma,0,7	BMP2K_ENST00000502871	NM_017593	exon11	c.G1380C	p.Q460H	TCACCAGCAGCAG		50	3	0.06	44	0	0		0	7	0	0				
FAT4	79633	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	126237899	126237899	+	Silent	SNP	T	T	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	FAT4_ENST00000394329,larynx,carcinoma,+2,2	FAT4_ENST00000394329	NM_024582	exon1	c.T333C	p.L111L	GGTCCTTTCCAGC		51	13	0.25	60	0	0		2	2	0	0				
SMARCA5	8467	hgsc.bcm.edu;broad.mit.edu	37	4	144445568	144445571	+	Frame_Shift_Del	DEL	AGAA	AGAA	-	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	AGAA	AGAA					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_003601	exon4	c.467_470del	p.156_157del	ATTAACAGAAAGC		380	73	0.19	371	0	0				1	0	0.00			
CDH6	1004	broad.mit.edu	37	5	31323132	31323132	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	CDH6,neck,malignant_melanoma,+1,1	CDH6	NM_004932	exon12	c.T2090C	p.L697P	AAGCCCTTTTCCT		163	3	0.02	164	0	0		175	1	0	0				
ZSWIM6	57688	broad.mit.edu	37	5	60628153	60628154	+	In_Frame_Ins	INS	-	-	GGC	rs374788320	alternate_allele	TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	ZSWIM6	NM_020928	exon1	c.54_55insGGC	p.P18delinsPG	CCGGCCGGGCGGC		6	2	0.33	4	0	0		51		0	0				
HSD17B4	3295	bcgsc.ca	37	5	118811418	118811418	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	HSD17B4	NM_001199291	exon6	c.G373T	p.A125S	AACAATGCTGGGT		118	0	0.00	84	0	0		63		0	0				
EBF1	1879	bcgsc.ca	37	5	158158144	158158144	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	EBF1	NM_024007	exon11	c.A1058G	p.D353G	CCATAATCGATGG		61	0	0.00	80	0	0		110		0	0				
SLC22A23	63027	broad.mit.edu	37	6	3273475	3273476	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	SLC22A23	NM_015482	exon10	c.1875_1876insA	p.N625fs	AGGCAGGTTCTGG		58	9	0.16	48	0	0		89		0	0				
BTN2A3P	0	broad.mit.edu	37	6	26422353	26422353	+	RNA	SNP	C	C	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	BTN2A3,NS,carcinoma,0,9	.	.	.	.	.	ATGGAACCAGCTG		102	6	0.06	96	1	0.0104166667			9	0	0				
ABT1	29777	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	26598339	26598339	+	Splice_Site	SNP	G	G	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_013375	exon2	c.438+1G>T	.	CTCAAGGTGAGAA		119	18	0.15	105	0	0				1	1	1.00			
BEND6	221336	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	56857323	56857323	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	BEND6,NS,carcinoma,0,1	BEND6	NM_152731	exon3	c.C268T	p.R90X	AACAGCCGACTTC		138	25	0.18	88	0	0		0	1	1	0	0.00			
REV3L	5980	hgsc.bcm.edu;broad.mit.edu	37	6	111804004	111804004	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_002912	exon1	c.G88T	p.A30S	CAGGGGCCTGGGT		73	18	0.25	75	0	0				0	0				
PRPS1L1	221823	broad.mit.edu	37	7	18067198	18067198	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	PRPS1L1	NM_175886	exon1	c.C208A	p.L70I	TCAAAAGCTCCAT		174	4	0.02	136	0	0		90		0	0				
GPNMB	10457	bcgsc.ca	37	7	23286485	23286486	+	Frame_Shift_Del	DEL	TC	TC	-	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	TC	TC					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	GPNMB	NM_002510	exon1	c.9_10del	p.3_4del	GGAATGTCTCTAC		98	0	0.00	84	0	0		88		0	0				
AVL9	23080	broad.mit.edu	37	7	32598232	32598232	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	AVL9	NM_015060	exon9	c.T671C	p.L224P	TATCCCTTTTTCC		135	4	0.03	90	1	0.0111111111		66		0	0				
NYAP1	222950	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	100086782	100086782	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_173564	exon4	c.C1438T	p.P480S	GGTCCACCCCTGG		75	19	0.25	54	0	0				0	0				
MUC17	140453	bcgsc.ca	37	7	100680100	100680100	+	Silent	SNP	G	G	A	rs142682652	byfrequency	TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	MUC17	NM_001040105	exon3	c.G5403A	p.S1801S	AACCTCGACTCTT		110	4	0.04	104	1	0.0096153846		804		0	0				
MUC17	140453	bcgsc.ca	37	7	100680117	100680117	+	Missense_Mutation	SNP	T	T	C	rs147353603	bycluster;byfrequency	TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	MUC17	NM_001040105	exon3	c.T5420C	p.M1807T	AAGGAATGACTCC		111	6	0.05	99	1	0.0101010101		804		0	0				
ZFHX4	79776	bcgsc.ca	37	8	77775665	77775665	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	ZFHX4	NM_024721	exon11	c.G9715A	p.D3239N	CATGTCGATCCTA		119	0	0.00	93	0	0		878		0	0				
SCRIB	23513	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	8	144893427	144893427	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	SCRIB,larynx,carcinoma,0,1	SCRIB	NM_015356	exon10	c.G995T	p.G332V	CAGCCCCCGATCT		81	24	0.30	71	0	0		0	1	2	0	0.00			
SMARCA2	6595	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	9	2115838	2115838	+	Missense_Mutation	SNP	A	A	C	rs281875240	alternate_allele	TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	NM_139045	exon25	c.A3473C	p.D1158A	CCCAAGACCGAGC		229	43	0.19	199	0	0				0	0				
ALDH1B1	219	broad.mit.edu	37	9	38396054	38396054	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	ALDH1B1	NM_000692	exon2	c.G309A	p.R103R	GGGCCGGCTGCTG		44	4	0.09	60	0	0		50		0	0				
SPATA31D4	0	broad.mit.edu	37	9	84545116	84545117	+	RNA	INS	-	-	TT	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	.	.	.	.	CGCCTTCTTTTTT		103	4	0.04	80	0	0				0	0				
ATRX	546	broad.mit.edu	37	X	76855029	76855029	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	ATRX	NM_000489	exon25	c.A5807G	p.K1936R	TTCCCCTTTTTCC		336	7	0.02	205	0	0		833		0	0				
MAGEA10-MAGEA5	0	broad.mit.edu	37	X	151290002	151290003	+	RNA	INS	-	-	T	rs200557971	by1000genomes	TCGA-2G-AAKG-05A-11D-A42Y-10	TCGA-2G-AAKG-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c9c47b6d-b71f-41d0-a5cc-075325b322a6	86018e7d-245a-41de-93d6-ff5b5d81db55	.	.	.	.	.	.	GATATTGTTTTTT		5	2	0.40	4	0	0				0	0				
