Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_File	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	COSMIC_Codon	COSMIC_Gene	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	TTotCov	TVarCov	NTotCov	NVarCov	dbSNPPopFreq	Trna_tot	Trna_ref	Trna_var	Trna_alt1	Trna_alt2
NOL9	79707	hgsc.bcm.edu	37	1	6614391	6614391	+	Missense_Mutation	SNP	A	A	C	rs6693391	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	NOL9-515	NM_024654	exon1	c.T172G	p.S58A	CGCCGGACGCCTG	.	5	5	0	0	A|0.047;C|0.953	0	0	0	0	0
TNFRSF1B	7133	broad.mit.edu	37	1	12262126	12262126	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	TNFRSF1B-1085	NM_001066	exon9	c.G1003T	p.A335S	AGCTCGGCCAGTG	.	62	5	46	1	.	8	7	1	0	0
OPRD1	4985	hgsc.bcm.edu	37	1	29138975	29138975	+	Missense_Mutation	SNP	G	G	T	rs1042114	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	OPRD1-69	NM_000911	exon1	c.G80T	p.C27F	GCGCCTGCCCCAG	.	6	6	0	0	G|0.061;T|0.939	0	0	0	0	0
TCTEX1D4	343521	hgsc.bcm.edu	37	1	45271828	45271828	+	Silent	SNP	T	T	C	rs17885815	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	TCTEX1D4-91	NM_001013632	exon2	c.A513G	p.V171V	ACTGCATACCAGC	.	6	5	0	0	T|0.859;C|0.141	0	0	0	0	0
FOXD3	27022	hgsc.bcm.edu	37	1	63788951	63788951	+	Silent	SNP	C	C	A	rs2274187	bycluster;byfrequency;by1000genomes	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	FOXD3-226	NM_012183	exon1	c.C222A	p.P74P	GCCGCCCCACCAG	.	8	8	0	0	C|0.842;A|0.158	0	0	0	0	0
WDR78	79819	hgsc.bcm.edu	37	1	67370954	67370954	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	WDR78-92	NM_207014	exon2	c.C275A	p.S92Y	GTTTTGGACACAG	.	59	4	128	0	.	1	1	0	0	0
SRSF11	9295	broad.mit.edu;bcgsc.ca	37	1	70716183	70716183	+	Silent	SNP	A	A	C	rs41287904	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	SRSF11-227	NM_004768	exon12	c.A1254C	p.V418V	AGATGTAAAAGTA	.	60	5	113	0	A|0.997;C|0.003	0	0	0	0	0
NR5A2	2494	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	200008804	200008804	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	NR5A2-227	NM_205860	exon2	c.G83C	p.C28S	CGGACCGACACGG	.	178	19	115	0	.	0	0	0	0	0
C1orf106	55765	hgsc.bcm.edu	37	1	200880978	200880978	+	Missense_Mutation	SNP	C	C	T	rs296520	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	C1orf106-93	NM_018265	exon9	c.C1654T	p.R552C	GAGCTGCGCCGCG	.	36	18	0	0	C|0.242;T|0.758	0	0	0	0	0
RHOU	58480	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	228879456	228879456	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	RHOU-659	NM_021205	exon3	c.C746A	p.S249Y	CCAAGTCCTGGTG	.	192	81	181	0	.	46	22	24	0	0
IRF2BP2	359948	hgsc.bcm.edu	37	1	234745009	234745009	+	Missense_Mutation	SNP	A	A	G	rs7545855	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	IRF2BP2-90	NM_182972	exon1	c.T232C	p.S78P	CGGCCGAGGCCGC	.	10	10	0	0	A|0.383;G|0.617	0	0	0	0	0
C10orf113	387638	hgsc.bcm.edu	37	10	21435342	21435342	+	Missense_Mutation	SNP	A	A	T	rs200339723		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	C10orf113-93	NM_001177483	exon1	c.T96A	p.S32R	ACAAACACTCTCT	.	115	5	128	0	.	0	0	0	0	0
ARMC4	55130	ucsc.edu	37	10	28250635	28250635	+	Silent	SNP	A	A	C	rs75389371		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ARMC4-96	NM_018076	exon10	c.T1248G	p.A416A	CTTTTCAGCACTC	.	79	10	49	2	.	0	0	0	0	0
GPRIN2	9721	hgsc.bcm.edu	37	10	47000217	47000217	+	Missense_Mutation	SNP	G	G	A	rs72780221	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	GPRIN2-90	NM_014696	exon3	c.G1337A	p.R446H	TGCGGCGCCCCAG	.	22	11	1	0	G|0.901;A|0.099	0	0	0	0	0
TAF5	6877	hgsc.bcm.edu	37	10	105128134	105128134	+	Missense_Mutation	SNP	T	T	G	rs10883859	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	TAF5-92	NM_006951	exon1	c.T388G	p.S130A	GCGGGCTCCGGAG	.	10	5	0	0	T|0.623;G|0.377	0	0	0	0	0
SMC3	9126	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	112350315	112350315	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	SMC3-92	NM_005445	exon16	c.T1655G	p.V552G	TGGAAGTCACTGC	.	188	80	203	0	.	9	2	7	0	0
PDCD4	27250	ucsc.edu	37	10	112657841	112657841	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	PDCD4-291	NM_014456	exon12	c.T1405C	p.Y469H	GAGAGCTACTGAA	.	40	4	26	1	.	38	38	0	0	0
MUC6	4588	bcgsc.ca	37	11	1016835	1016835	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	MUC6-23	NM_005961	exon31	c.T5966C	p.F1989S	GTCTGGAAGGATG	.	1573	60	2499	39	.	1	1	0	0	0
SYT8	90019	hgsc.bcm.edu	37	11	1858572	1858572	+	Missense_Mutation	SNP	C	C	T	rs2292474	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	SYT8-91	NM_138567	exon9	c.C1117T	p.R373W	GCCCAGCGGCACC	.	24	24	0	0	C|0.602;T|0.398	0	0	0	0	0
WT1	7490	hgsc.bcm.edu	37	11	32456694	32456694	+	Silent	SNP	C	C	A	rs2234582	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	WT1-6891	NM_024424	exon1	c.G198T	p.P66P	TTGCTGCGGCTCA	.	4	4	0	0	C|0.748;A|0.252	0	0	0	0	0
NRXN2	9379	hgsc.bcm.edu	37	11	64480641	64480641	+	Silent	SNP	G	G	A	rs2518907		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	NRXN2-232	NM_138732	exon2	c.C531T	p.G177G	CAAGAGGCCGCGG	.	6	6	0	0	G|0.449;A|0.551	0	0	0	0	0
MEN1	4221	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	64573212	64573216	+	Frame_Shift_Del	DEL	GATCT	GATCT	-	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	GATCT	GATCT	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	MEN1-3017	NM_130800	exon8	c.1091_1095del	p.364_365del	CTTGTAGATCTCC	.	89	61	210	0	.	0	0	0	0	0
SF3B2	10992	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	65826803	65826803	+	Silent	SNP	C	C	T	rs143148362	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	SF3B2-92	NM_006842	exon11	c.C1314T	p.D438D	TGATGACGAGCAG	.	145	118	213	1	C|0.999;T|0.001	0	0	0	0	0
YIF1A	10897	broad.mit.edu	37	11	66055601	66055601	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	YIF1A-90	NM_020470	exon2	c.C194A	p.A65D	CCATAGGCCATAG	.	105	3	195	1	.	73	73	0	0	0
IQSEC3	440073	hgsc.bcm.edu	37	12	248155	248155	+	Silent	SNP	C	C	T	rs55923022		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	IQSEC3-560	NM_001170738	exon4	c.C1626T	p.A542A	CCCCGCCGTGGGC	.	15	9	0	0	C|0.880;T|0.120	0	0	0	0	0
PKP2	5318	hgsc.bcm.edu	37	12	33049590	33049590	+	Missense_Mutation	SNP	C	C	T	rs143004808		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	PKP2-92	NM_004572	exon1	c.G76A	p.D26N	AGCTGTCCAGTTG	.	31	12	0	0	C|0.997;T|0.003	0	0	0	0	0
DBX2	440097	hgsc.bcm.edu	37	12	45444516	45444516	+	Silent	SNP	G	G	A	rs139910495		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	DBX2-90	NM_001004329	exon1	c.C195T	p.A65A	GGCCAGGGCGGTC	.	11	7	1	0	G|0.930;A|0.070	0	0	0	0	0
KRT7	3855	hgsc.bcm.edu	37	12	52627215	52627215	+	Silent	SNP	A	A	G	rs7308888	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	KRT7-90	NM_005556	exon1	c.A135G	p.S45S	CGCCTCACGGCCG	.	7	7	0	0	A|0.133;G|0.867	0	0	0	0	0
AMDHD1	144193	hgsc.bcm.edu	37	12	96337183	96337183	+	Missense_Mutation	SNP	A	A	G	rs7955450	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	AMDHD1-90	NM_152435	exon1	c.A7G	p.S3G	ATGGCAAGCGGCC	.	17	17	0	0	A|0.273;G|0.727	1	0	1	0	0
SCARB1	949	broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	125279751	125279751	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	SCARB1-226	NM_005505	exon9	c.G1192A	p.A398T	TGCCTGCGACAGA	.	146	64	123	2	.	2	1	1	0	0
PUS1	80324	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	132426223	132426223	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	PUS1-577	NM_025215	exon5	c.G931A	p.E311K	GCCCCTGAGAGCG	.	236	109	206	0	.	28	17	11	0	0
MEDAG	84935	hgsc.bcm.edu	37	13	31480827	31480827	+	Missense_Mutation	SNP	A	A	G	rs9531945	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	.	NM_032849	exon1	c.A175G	p.R59G	GTGGCCAGGCCCG	.	7	7	0	0	A|0.219;G|0.781	0	0	0	0	0
POSTN	10631	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	13	38148740	38148740	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	POSTN-516	NM_006475	exon17	c.A2058C	p.E686D	ACTGCCTTCAATC	.	33	20	39	0	.	0	0	0	0	0
DLEU7	220107	hgsc.bcm.edu	37	13	51417535	51417535	+	Missense_Mutation	SNP	G	G	A	rs898861		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	.	NM_198989	exon1	c.C248T	p.A83V	GAGTTCGCCCGCG	.	8	6	0	0	G|0.789;A|0.211	0	0	0	0	0
IRS2	8660	hgsc.bcm.edu	37	13	110435728	110435728	+	Silent	SNP	C	C	G	rs75172981		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	IRS2-1334	NM_003749	exon1	c.G2673C	p.T891T	CAGGCGCGTGGGC	.	9	6	0	0	C|0.970;G|0.030	2	1	1	0	0
ING1	3621	hgsc.bcm.edu	37	13	111368316	111368316	+	Silent	SNP	C	C	T	rs9555726	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ING1-515	NM_005537	exon1	c.C526T	p.L176L	GCATCTCTGCTGA	.	11	6	0	0	C|0.372;T|0.628	2	2	0	0	0
UPF3A	65110	broad.mit.edu	37	13	115047559	115047559	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	UPF3A-91	NM_080687	exon2	c.C271T	p.L91L	CGCCCGCTGCCAG	.	89	8	27	0	.	12	12	0	0	0
ARHGEF40	55701	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	21544607	21544607	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ARHGEF40-228	NM_018071	exon6	c.C1828T	p.Q610X	TTGAGCCAACTTC	.	79	33	72	0	.	0	0	0	0	0
SYNE3	161176	broad.mit.edu	37	14	95923568	95923568	+	Silent	SNP	G	G	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	.	NM_152592	exon4	c.C735A	p.G245G	CAGGCAGCCATTC	.	193	9	171	2	.	0	0	0	0	0
HHIPL1	84439	hgsc.bcm.edu	37	14	100141689	100141689	+	Missense_Mutation	SNP	T	T	C	rs7158073	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	HHIPL1-70	NM_001127258	exon9	c.T2075C	p.V692A	TGTTCGTGGGCGG	.	15	15	0	0	T|0.478;C|0.522	0	0	0	0	0
CKB	1152	hgsc.bcm.edu	37	14	103988180	103988180	+	Silent	SNP	G	G	T	rs1136165	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	CKB-115	NM_001823	exon4	c.C456A	p.R152R	GATGGCGCGGCGC	.	5	5	0	0	G|0.327;T|0.673	25	8	17	0	0
SPTBN5	51332	ucsc.edu;bcgsc.ca	37	15	42173312	42173312	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	SPTBN5-91	NM_016642	exon13	c.C2473G	p.P825A	AGTCAGGGTCAGG	.	218	102	167	3	.	0	0	0	0	0
LACTB	114294	hgsc.bcm.edu	37	15	63414083	63414083	+	Missense_Mutation	SNP	A	A	C	rs34317102	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	LACTB-90	NM_171846	exon1	c.A13C	p.M5L	CGGCTCATGTCAG	.	17	4	0	0	A|0.226;C|0.774	2	1	1	0	0
KBTBD13	390594	hgsc.bcm.edu	37	15	65369365	65369365	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	.	NM_001101362	exon1	c.C212T	p.A71V	GGCCGGCGCTGGC	.	5	4	0	0	.	0	0	0	0	0
ARRDC4	91947	hgsc.bcm.edu	37	15	98504326	98504326	+	Missense_Mutation	SNP	A	A	G	rs12101554	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ARRDC4-90	NM_183376	exon1	c.A235G	p.T79A	GCCAGCACCGCGG	.	12	12	0	0	A|0.263;G|0.737	1	0	1	0	0
EME2	197342	hgsc.bcm.edu	37	16	1823444	1823444	+	Silent	SNP	C	C	G	rs761065		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	EME2-229	NM_001257370	exon1	c.C216G	p.V72V	GCAGGTCCTGAAG	.	14	8	0	0	C|0.615;G|0.385	0	0	0	0	0
CASKIN1	57524	hgsc.bcm.edu	37	16	2230855	2230855	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	CASKIN1-92	NM_020764	exon18	c.G2514A	p.Q838Q	CACGGGCTGGGGC	.	12	8	0	0	.	0	0	0	0	0
ZSCAN10	84891	hgsc.bcm.edu	37	16	3139879	3139879	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ZSCAN10-227	NM_032805	exon5	c.G1391A	p.R464Q	GGCCTCCGGTCGG	.	23	11	0	0	.	0	0	0	0	0
MEFV	4210	hgsc.bcm.edu	37	16	3304573	3304573	+	Silent	SNP	G	G	T	rs224223	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	MEFV-228	NM_000243	exon2	c.C495A	p.A165A	CTCCGAGGCCTTC	.	11	7	1	0	G|0.570;T|0.430	0	0	0	0	0
LOC100132247	0	broad.mit.edu	37	16	22545865	22545865	+	Missense_Mutation	SNP	G	G	C	rs202011711	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	.	NM_001135865	exon7	c.G1561C	p.A521P	CTCACTGCCCTTC	.	64	3	55	1	G|0.984;C|0.016	1195	23	1171	1	0
IRX3	79191	hgsc.bcm.edu	37	16	54318528	54318528	+	Missense_Mutation	SNP	A	A	G	rs1450355		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	IRX3-90	NM_024336	exon2	c.T1265C	p.L422P	GGGTGCAGGCGGG	.	10	10	0	0	T|0.035;G|0.004	0	0	0	0	0
WWOX	51741	broad.mit.edu	37	16	78133685	78133685	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	WWOX-90	NM_130791	exon1	c.C10G	p.L4V	GCAGCGCTGCGCT	.	113	4	27	0	.	2	2	0	0	0
GLTPD2	388323	hgsc.bcm.edu	37	17	4693342	4693342	+	Missense_Mutation	SNP	C	C	A	rs35910358		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	GLTPD2-68	NM_001014985	exon4	c.C627A	p.D209E	CCCGGACGCGGGC	.	15	15	0	0	C|0.015;A|0.985	0	0	0	0	0
RNF222	643904	hgsc.bcm.edu	37	17	8296383	8296383	+	Missense_Mutation	SNP	C	C	T	rs12601362	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	RNF222-68	NM_001146684	exon3	c.G397A	p.A133T	GCTGGGCGCTCTG	.	15	11	0	0	C|0.808;T|0.192	0	0	0	0	0
MYO18A	399687	broad.mit.edu	37	17	27437604	27437604	+	Silent	SNP	G	G	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	MYO18A-22	NM_078471	exon18	c.C2937A	p.G979G	GGCACTGCCTGCG	.	58	8	14	0	.	1	1	0	0	0
IGFBP4	3487	hgsc.bcm.edu	37	17	38600092	38600092	+	Silent	SNP	G	G	A	rs598892	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	IGFBP4-522	NM_001552	exon1	c.G105A	p.L35L	GAAGCTGGCGCGC	.	14	14	0	0	G|0.645;A|0.355	0	0	0	0	0
BZRAP1	9256	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	56399729	56399729	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	BZRAP1-229	NM_004758	exon10	c.G1362A	p.E454E	TTCATGCTCCACC	.	95	21	48	0	.	4	4	0	0	0
STRADA	92335	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	61787883	61787883	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	STRADA-547	NM_001003787	exon8	c.C549T	p.L183L	GTAGTCGAGGGCC	.	309	79	209	0	.	3	3	0	0	0
BIRC5	332	broad.mit.edu	37	17	76219637	76219637	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	BIRC5-1083	NM_001012270	exon3	c.G313T	p.A105S	ATTGAGGCCTCTG	.	21	4	41	0	.	5	5	0	0	0
NPTX1	4884	hgsc.bcm.edu	37	17	78449948	78449948	+	Missense_Mutation	SNP	C	C	T	rs144443274		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	NPTX1-90	NM_002522	exon1	c.G299A	p.G100D	GCCTCGCCGGCTC	.	22	8	0	0	C|0.910;T|0.090	0	0	0	0	0
FASN	2194	hgsc.bcm.edu	37	17	80043739	80043739	+	Silent	SNP	A	A	G	rs2229422	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	FASN-90	NM_004104	exon23	c.T3741C	p.A1247A	GTGGCCAGCCAGC	.	28	19	2	0	T|0.697;G|0.014;C|0.242;A|0.047	0	0	0	0	0
SALL3	27164	hgsc.bcm.edu	37	18	76753768	76753768	+	Missense_Mutation	SNP	C	C	G	rs2447437	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	SALL3-155	NM_171999	exon2	c.C1777G	p.L593V	CCGCCCCTCACTA	.	8	7	0	0	C|0.780;G|0.220	0	0	0	0	0
ATP9B	374868	hgsc.bcm.edu	37	18	76829525	76829525	+	Missense_Mutation	SNP	A	A	G	rs4078115		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ATP9B-93	NM_198531	exon1	c.A115G	p.S39G	CGGCACAGCAGGT	.	9	6	0	0	A|0.693;G|0.307	0	0	0	0	0
ARID3A	1820	hgsc.bcm.edu	37	19	929753	929753	+	Silent	SNP	A	A	G	rs1799595		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ARID3A-90	NM_005224	exon2	c.A225G	p.P75P	ACACCCAGCCAGC	.	6	6	0	0	A|0.114;G|0.886	1	0	1	0	0
ABCA7	10347	hgsc.bcm.edu	37	19	1065044	1065044	+	Silent	SNP	C	C	T	rs4147935	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ABCA7-98	NM_019112	exon46	c.C6159T	p.G2053G	TGGAGGCCGCCTG	.	17	10	0	0	C|0.766;T|0.234	5	3	2	0	0
APC2	10297	hgsc.bcm.edu	37	19	1457006	1457006	+	Missense_Mutation	SNP	C	C	T	rs201709261		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	APC2-290	NM_005883	exon9	c.C971T	p.T324I	ACGGCACCGAGGC	.	9	5	0	0	.	0	0	0	0	0
TCF3	6929	hgsc.bcm.edu	37	19	1619333	1619333	+	Silent	SNP	G	G	A	rs1140828	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	TCF3-721	NM_003200	exon15	c.C1308T	p.G436G	CCGCCCGCCCAGT	.	11	10	0	0	G|0.749;A|0.251	0	0	0	0	0
TCF3	6929	hgsc.bcm.edu	37	19	1619339	1619339	+	Silent	SNP	T	T	C	rs8140	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	TCF3-721	NM_003200	exon15	c.A1302G	p.S434S	GCCCAGTGACATG	.	13	12	0	0	T|0.403;C|0.597	0	0	0	0	0
TBXA2R	6915	hgsc.bcm.edu	37	19	3600198	3600198	+	Silent	SNP	C	C	T	rs5748	bycluster;byfrequency;by1000genomes	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	TBXA2R-90	NM_201636	exon2	c.G435A	p.S145S	GCGCTGCGAGGCG	.	16	11	1	0	T|0.045;C|0.955	1	0	1	0	0
CACTIN	58509	bcgsc.ca	37	19	3611972	3611972	+	Silent	SNP	G	G	A	rs2158935	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	.	NM_021231	exon10	c.C2226T	p.N742N	GATGCCGTTGGCA	.	160	6	137	0	G|0.545;A|0.455	8	8	0	0	0
CCDC105	126402	hgsc.bcm.edu	37	19	15133926	15133926	+	Missense_Mutation	SNP	C	C	A	rs8112667	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	CCDC105-91	NM_173482	exon7	c.C1495A	p.P499T	GCGGACCCCTAGT	.	23	11	1	0	C|0.671;A|0.329	0	0	0	0	0
NR2F6	2063	hgsc.bcm.edu	37	19	17346441	17346441	+	Silent	SNP	A	A	T	rs146497684		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	NR2F6-186	NM_005234	exon3	c.T807A	p.P269P	GGCCATAGGCGCG	.	19	8	0	0	A|0.983;T|0.016	7	4	3	0	0
GDF15	9518	bcgsc.ca	37	19	18497024	18497024	+	Missense_Mutation	SNP	G	G	C	rs1059519	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	GDF15-650	NM_004864	exon1	c.G25C	p.V9L	AGGACGGTGAATG	.	164	7	125	0	G|0.399;C|0.601	14	14	0	0	0
ZNF99	7652	bcgsc.ca	37	19	22941591	22941591	+	Missense_Mutation	SNP	A	A	T	rs62119159	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ZNF99-24	NM_001080409	exon4	c.T1120A	p.C374S	TGCCGCATTCTTC	.	24	4	46	0	A|0.911;T|0.089	0	0	0	0	0
NUDT19	390916	hgsc.bcm.edu	37	19	33183352	33183352	+	Silent	SNP	G	G	C	rs61732600	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	NUDT19-22	NM_001105570	exon1	c.G486C	p.P162P	ACCGCCGGGCCTG	.	13	7	0	0	G|0.743;C|0.257	0	0	0	0	0
MAP3K10	4294	hgsc.bcm.edu	37	19	40720079	40720079	+	Silent	SNP	C	C	T	rs3746005		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	MAP3K10-981	NM_002446	exon9	c.C2493T	p.D831D	ATCGGACGGGGCG	.	4	4	0	0	C|0.260;T|0.740	1	0	1	0	0
CEACAM20	125931	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	45028106	45028106	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	CEACAM20-67	NM_001102600	exon3	c.C385T	p.Q129X	CCCGCTGGACAAT	.	466	192	386	0	.	0	0	0	0	0
ERCC2	2068	hgsc.bcm.edu	37	19	45867259	45867259	+	Missense_Mutation	SNP	C	C	T	rs1799793	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ERCC2-848	NM_000400	exon10	c.G934A	p.D312N	CTTCGTCGGGCAG	.	20	8	1	0	C|0.804;T|0.196	18	8	10	0	0
PRR24	255783	hgsc.bcm.edu	37	19	47778412	47778412	+	Missense_Mutation	SNP	G	G	T	rs1055218		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	.	NM_178511	exon1	c.G236T	p.R79L	CTGCCCGCCCGGG	.	7	5	0	0	G|0.585;T|0.415	0	0	0	0	0
GRIN2D	2906	hgsc.bcm.edu	37	19	48945880	48945880	+	Silent	SNP	T	T	C	rs62130268		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	GRIN2D-156	NM_000836	exon13	c.T2697C	p.A899A	CAGCGCTGAGGCC	.	7	7	0	0	T|0.245;C|0.755	0	0	0	0	0
PTH2	113091	broad.mit.edu	37	19	49926533	49926533	+	Missense_Mutation	SNP	G	G	C	rs200733272		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	PTH2-22	NM_178449	exon1	c.C64G	p.L22V	CCACCAGCAGCAG	.	62	4	19	0	.	0	0	0	0	0
TSKS	60385	hgsc.bcm.edu	37	19	50249905	50249905	+	Missense_Mutation	SNP	T	T	C	rs57733064	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	TSKS-154	NM_021733	exon6	c.A814G	p.S272G	CCAGGCTGTTCCA	.	14	7	3	0	T|0.911;C|0.089	0	0	0	0	0
ASPDH	554235	hgsc.bcm.edu	37	19	51015404	51015404	+	Missense_Mutation	SNP	T	T	C	rs12977172	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ASPDH-90	NM_001114598	exon6	c.A797G	p.Q266R	AGGCTCTGCCAGA	.	9	8	0	0	T|0.228;C|0.772	0	0	0	0	0
SSC5D	284297	hgsc.bcm.edu	37	19	56000755	56000755	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	.	NM_001195267	exon3	c.C87T	p.C29C	TGGGTGCGCTGGC	.	51	28	3	0	.	0	0	0	0	0
ZNF787	126208	hgsc.bcm.edu	37	19	56599438	56599440	+	In_Frame_Del	DEL	TCG	TCG	-	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	TCG	TCG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ZNF787-69	NM_001002836	exon3	c.1101_1103del	p.367_368del	GCGGCCTCGTCGT	.	18	16	0	0	.	0	0	0	0	0
ZSCAN1	284312	hgsc.bcm.edu	37	19	58549354	58549354	+	Silent	SNP	C	C	T	rs113374422	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ZSCAN1-92	NM_182572	exon3	c.C150T	p.S50S	GGCGAGCGGGCCG	.	92	42	2	0	C|0.975;T|0.025	0	0	0	0	0
TPO	7173	hgsc.bcm.edu	37	2	1481231	1481231	+	Missense_Mutation	SNP	G	G	C	rs2175977	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	TPO-332	NM_175719	exon8	c.G1193C	p.S398T	GCGCCAGCGAGGT	.	25	25	0	0	G|0.301;C|0.699	0	0	0	0	0
PXDN	7837	hgsc.bcm.edu	37	2	1748117	1748117	+	Silent	SNP	C	C	G	rs140134102	by1000genomes	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	PXDN-166	NM_012293	exon1	c.G111C	p.P37P	GCGGCTCGGACAC	.	13	7	0	0	C|0.967;G|0.033	0	0	0	0	0
CMPK2	129607	hgsc.bcm.edu	37	2	7005369	7005369	+	Silent	SNP	A	A	G	rs11678810		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	CMPK2-68	NM_001256478	exon1	c.T459C	p.C153C	CTCCTGACAGGCG	.	6	6	0	0	A|0.003;G|0.997	0	0	0	0	0
NBAS	51594	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	15607887	15607887	+	Missense_Mutation	SNP	T	T	C	rs186337430		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	NBAS-94	NM_015909	exon18	c.A1919G	p.Y640C	TCTTCATAGGAGA	.	112	59	135	0	T|0.999;C|0.000	2	0	2	0	0
ARHGEF33	100271715	hgsc.bcm.edu	37	2	39187519	39187519	+	Silent	SNP	A	A	G	rs958412		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ARHGEF33-46	NM_001145451	exon14	c.A2073G	p.K691K	CTACAAACTGGAG	.	5	5	0	0	A|0.086;G|0.914	0	0	0	0	0
LONRF2	164832	hgsc.bcm.edu	37	2	100938481	100938481	+	Missense_Mutation	SNP	C	C	G	rs74177696		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	LONRF2-154	NM_198461	exon1	c.G75C	p.Q25H	TAAGCGCTGGGCG	.	7	5	0	0	C|0.540;G|0.460	0	0	0	0	0
C1QL2	165257	hgsc.bcm.edu	37	2	119915509	119915509	+	Silent	SNP	G	G	T	rs1317848	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	C1QL2-91	NM_182528	exon1	c.C337A	p.R113R	CGGGCCGCCCCGA	.	10	5	0	0	G|0.681;T|0.319	0	0	0	0	0
LYPD1	116372	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	133425989	133425989	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	LYPD1-90	NM_144586	exon2	c.G174A	p.V58V	CTCCATCACTTCT	.	97	11	114	0	.	0	0	0	0	0
ZEB2	9839	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	145187558	145187558	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ZEB2-297	NM_001171653	exon3	c.G109T	p.E37X	CTGTTTCAGAACC	.	104	13	109	0	.	1	1	0	0	0
IKZF2	22807	broad.mit.edu;bcgsc.ca	37	2	213872463	213872463	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	IKZF2-226	NM_016260	exon8	c.G1202A	p.S401N	CTATTGCTGGGAG	.	174	7	163	1	.	0	0	0	0	0
WNT6	7475	hgsc.bcm.edu	37	2	219736369	219736369	+	Missense_Mutation	SNP	C	C	G	rs141494427		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	WNT6-564	NM_006522	exon3	c.C464G	p.P155R	GACCCCCTGGCCC	.	35	19	1	0	C|0.979;G|0.021	0	0	0	0	0
PRR21	643905	hgsc.bcm.edu	37	2	240982362	240982362	+	Missense_Mutation	SNP	G	G	A	rs151246209	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	PRR21-70	NM_001080835	exon1	c.C38T	p.P13L	ATGAAGGGCCGTG	.	157	9	157	0	G|0.991;A|0.009	0	0	0	0	0
PASK	23178	broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	242077469	242077469	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	PASK-536	NM_015148	exon6	c.C775A	p.H259N	GAAGATGAGCAAA	.	181	64	203	2	.	0	0	0	0	0
ZCCHC3	85364	hgsc.bcm.edu	37	20	278515	278515	+	Silent	SNP	T	T	C	rs2223665	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ZCCHC3-90	NM_033089	exon1	c.T288C	p.D96D	CGGGGATCCGAAG	.	6	6	0	0	T|0.454;C|0.546	0	0	0	0	0
TCF15	6939	hgsc.bcm.edu	37	20	590456	590456	+	Silent	SNP	A	A	G	rs282164	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	TCF15-90	NM_004609	exon1	c.T426C	p.R142R	CGCGGCACGGAAG	.	13	12	0	0	A|0.165;G|0.835	0	0	0	0	0
GFRA4	64096	hgsc.bcm.edu	37	20	3641868	3641868	+	Missense_Mutation	SNP	A	A	T	rs146579049		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	GFRA4-90	NM_022139	exon2	c.T115A	p.C39S	GCTGGCACCGCGC	.	19	9	0	0	A|0.985;T|0.015	0	0	0	0	0
FRG1B	284802	broad.mit.edu;bcgsc.ca	37	20	29625895	29625895	+	RNA	SNP	G	G	A	rs76435412	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	FRG1B-22	.	.	.	.	GGCTATGGAAAAT	.	63	5	67	0	G|0.800;A|0.200	19	19	0	0	0
DUSP15	128853	hgsc.bcm.edu	37	20	30449325	30449325	+	Missense_Mutation	SNP	C	C	G	rs947310	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	DUSP15-227	NM_080611	exon7	c.G589C	p.V197L	GCTGCACGGTTCC	.	6	4	0	0	C|0.639;G|0.361	0	0	0	0	0
COL18A1	80781	hgsc.bcm.edu	37	21	46929360	46929360	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	COL18A1-90	NM_030582	exon39	c.C3871T	p.R1291W	ACCGCGCGGCCCT	.	32	13	0	0	.	87	37	50	0	0
SCARF2	91179	hgsc.bcm.edu	37	22	20780091	20780091	+	Silent	SNP	C	C	G	rs77189880	bycluster;byfrequency;by1000genomes	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	SCARF2-341	NM_153334	exon11	c.G2187C	p.P729P	CAGCCCCGGGGGG	.	8	8	0	0	C|0.138;G|0.862	0	0	0	0	0
SCARF2	91179	hgsc.bcm.edu	37	22	20780097	20780097	+	Silent	SNP	G	G	C	rs759609	bycluster;byfrequency;by1000genomes	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	SCARF2-341	NM_153334	exon11	c.C2181G	p.R727R	CGGGGGGCGCGGC	.	8	8	0	0	G|0.826;C|0.174	0	0	0	0	0
POM121L1P	25812	broad.mit.edu	37	22	22985653	22985653	+	RNA	SNP	A	A	G	rs5759226		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	.	.	.	.	.	ATGCTAAGGGGGC	.	11	3	10	0	.	4	0	4	0	0
NEFH	4744	ucsc.edu	37	22	29885564	29885564	+	Silent	SNP	A	A	G	rs202065964		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	NEFH-90	NM_021076	exon4	c.A1935G	p.E645E	GGAGGAAGCAAAG	.	179	47	168	1	.	10	10	0	0	0
NEFH	4744	hgsc.bcm.edu;ucsc.edu	37	22	29885594	29885594	+	Silent	SNP	A	A	T	rs79235463	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	NEFH-90	NM_021076	exon4	c.A1965T	p.P655P	GTCCCCAGAGAAG	.	247	57	257	0	A|0.500;T|0.500	4	4	0	0	0
NEFH	4744	broad.mit.edu	37	22	29885599	29885604	+	In_Frame_Del	DEL	AGGAAG	AGGAAG	-	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	NEFH-90	NM_021076	exon4	c.1970_1975del	p.657_659del	CAGAGAAGGAAGA	.	265	24	276	0	.	0	0	0	0	0
TOM1	10043	broad.mit.edu	37	22	35734776	35734776	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	TOM1-91	NM_001135732	exon12	c.G1219T	p.G407C	AGCACTGGCGCGG	.	35	3	19	0	.	1	1	0	0	0
TRIOBP	11078	hgsc.bcm.edu	37	22	38122462	38122462	+	Missense_Mutation	SNP	A	A	G	rs739138	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	TRIOBP-136	NM_001039141	exon7	c.A3899G	p.H1300R	GCACCCACAGCCC	.	31	11	2	0	A|0.354;G|0.646	0	0	0	0	0
CTNNB1	1499	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	41266117	41266139	+	Frame_Shift_Del	DEL	TGCCACTACCACAGCTCCTTCTC	TGCCACTACCACAGCTCCTTCTC	-	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	TGCCACTACCACAGCTCCTTCTC	TGCCACTACCACAGCTCCTTCTC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	CTNNB1-24361	NM_001098209	exon3	c.114_136del	p.38_46del	TTCTGGTGCCACT	.	183	21	208	0	.	0	0	0	0	0
IP6K2	51447	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	48726082	48726082	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	IP6K2-265	NM_016291	exon6	c.A905G	p.E302G	AGGAGTTCACGGC	.	253	40	249	0	.	48	45	3	0	0
LRIG1	26018	hgsc.bcm.edu	37	3	66550756	66550756	+	Missense_Mutation	SNP	G	G	C	rs1403625		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	LRIG1-230	NM_015541	exon1	c.C76G	p.L26V	GCCGAAGCAAAAG	.	11	11	0	0	G|0.237;C|0.763	0	0	0	0	0
LRIG1	26018	hgsc.bcm.edu	37	3	66550762	66550762	+	Missense_Mutation	SNP	G	G	C	rs1403626	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	LRIG1-230	NM_015541	exon1	c.C70G	p.L24V	GCAAAAGCAGCCA	.	15	15	0	0	G|0.252;C|0.748	0	0	0	0	0
ATR	545	bcgsc.ca	37	3	142278201	142278201	+	Missense_Mutation	SNP	T	T	C	rs200491706		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ATR-1139	NM_001184	exon7	c.A1624G	p.K542E	GCACTTTTGTGTA	.	144	6	121	2	.	0	0	0	0	0
DHX36	170506	hgsc.bcm.edu	37	3	153994065	153994065	+	Silent	SNP	G	G	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	DHX36-226	NM_020865	exon25	c.C2922A	p.S974S	GTCTCTGGATTTA	.	100	5	134	0	.	28	28	0	0	0
CRIPAK	285464	hgsc.bcm.edu	37	4	1388755	1388755	+	Silent	SNP	C	C	G	rs141481663	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	CRIPAK-90	NM_175918	exon1	c.C456G	p.P152P	CGTGCCCATGCGG	.	128	7	2	0	C|0.960;G|0.040	24	11	13	0	0
TNIP2	79155	hgsc.bcm.edu	37	4	2757800	2757800	+	Missense_Mutation	SNP	G	G	C	rs74548850	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	TNIP2-90	NM_024309	exon1	c.C217G	p.R73G	GGAAGCGCGCAAC	.	23	10	1	0	G|0.957;C|0.043	1	1	0	0	0
OTOP1	133060	broad.mit.edu	37	4	4228274	4228282	+	In_Frame_Del	DEL	CCACAGCAG	CCACAGCAG	-	rs75328065	alternate_allele	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	OTOP1-92	NM_177998	exon1	c.310_318del	p.104_106del	CAGCATCCACAGC	.	111	12	5	0	.	0	0	0	0	0
CRMP1	1400	hgsc.bcm.edu	37	4	5894586	5894586	+	Silent	SNP	G	G	A	rs143304363		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	CRMP1-92	NM_001014809	exon1	c.C111T	p.A37A	CACCGCGGCGAAC	.	26	15	0	0	G|0.946;A|0.054	0	0	0	0	0
RBM47	54502	hgsc.bcm.edu	37	4	40440854	40440854	+	Silent	SNP	G	G	C	rs1052153	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	RBM47-25	NM_001098634	exon4	c.C57G	p.S19S	CTTGGCGGAGGAC	.	6	6	0	0	G|0.794;C|0.206	2	0	2	0	0
ZAR1	326340	hgsc.bcm.edu	37	4	48492434	48492434	+	Missense_Mutation	SNP	G	G	C	rs10008444		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ZAR1-90	NM_175619	exon1	c.G126C	p.Q42H	GCAGCAGCGCGGC	.	16	16	0	0	G|0.025;C|0.975	0	0	0	0	0
NMU	10874	hgsc.bcm.edu	37	4	56502307	56502307	+	Missense_Mutation	SNP	G	G	T	rs3828555	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	NMU-650	NM_006681	exon1	c.C53A	p.A18E	GACGCCGCGGCCA	.	15	15	0	0	G|0.853;T|0.147	0	0	0	0	0
ODAM	54959	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	71068537	71068537	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ODAM-134	NM_017855	exon9	c.G713C	p.G238A	GTGCAGGAGTTTT	.	215	85	223	0	.	0	0	0	0	0
ALB	213	bcgsc.ca	37	4	74272352	74272352	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ALB-96	NM_000477	exon3	c.G144T	p.L48F	GGTGTTGATTGCC	.	77	5	79	0	.	0	0	0	0	0
FAT4	79633	broad.mit.edu	37	4	126371727	126371727	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	FAT4-108	NM_024582	exon9	c.G9556A	p.D3186N	GTGATTGATGTGA	.	253	10	286	0	.	0	0	0	0	0
HPGD	3248	bcgsc.ca	37	4	175443156	175443156	+	Silent	SNP	C	C	T	rs1050145	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	HPGD-90	NM_000860	exon2	c.G156A	p.Q52Q	TTCAAACTGCTCA	.	121	8	117	0	C|0.628;T|0.372	18	18	0	0	0
NSUN2	54888	hgsc.bcm.edu	37	5	6633042	6633042	+	Silent	SNP	C	C	T	rs10062086	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	NSUN2-91	NM_017755	exon1	c.G51A	p.E17E	CGCGTCCTCCGGC	.	10	8	0	0	C|0.687;T|0.313	1	1	0	0	0
IQGAP2	10788	bcgsc.ca	37	5	75948601	75948601	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	IQGAP2-96	NM_006633	exon18	c.G2121A	p.R707R	ACAACGGAAGGAG	.	141	6	145	0	.	9	9	0	0	0
GPR150	285601	hgsc.bcm.edu	37	5	94956923	94956923	+	Missense_Mutation	SNP	G	G	A	rs201990735		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	GPR150-90	NM_199243	exon1	c.G944A	p.R315Q	CCGCCCGGCTGGC	.	24	18	0	0	.	0	0	0	0	0
CHSY3	337876	hgsc.bcm.edu	37	5	129240972	129240972	+	Silent	SNP	G	G	C	rs33917	byfrequency;by2hit2allele;by1000genomes	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	CHSY3-25	NM_175856	exon1	c.G450C	p.P150P	CCGGCCGGGGAGT	.	5	4	0	0	G|0.479;C|0.521	0	0	0	0	0
PCDHB10	56126	hgsc.bcm.edu	37	5	140573844	140573844	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	PCDHB10-92	NM_018930	exon1	c.C1719T	p.T573T	CTGCACCGAGCTG	.	105	39	4	0	.	15	12	3	0	0
ARL10	285598	hgsc.bcm.edu	37	5	175792605	175792605	+	Silent	SNP	G	G	C	rs2303667		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ARL10-91	NM_173664	exon1	c.G39C	p.L13L	GGCGCTGGGCGGC	.	9	9	0	0	G|0.585;C|0.415	0	0	0	0	0
PPP1R3G	648791	hgsc.bcm.edu	37	6	5086070	5086070	+	Silent	SNP	A	A	G	rs667752		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	PPP1R3G-136	NM_001145115	exon1	c.A351G	p.A117A	GGACGCACAGCTC	.	7	7	0	0	A|0.006;G|0.994	3	0	3	0	0
PPP1R3G	648791	hgsc.bcm.edu	37	6	5086211	5086211	+	Silent	SNP	G	G	C	rs584962		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	PPP1R3G-136	NM_001145115	exon1	c.G492C	p.L164L	GCGCCTGCGAAGC	.	6	6	0	0	G|0.000;C|1.000	6	0	6	0	0
RREB1	6239	hgsc.bcm.edu	37	6	7230680	7230680	+	Missense_Mutation	SNP	G	G	T	rs9502564	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	RREB1-144	NM_001003700	exon10	c.G2348T	p.G783V	GCGGGGGCCACAA	.	27	20	0	0	G|0.546;T|0.454	0	0	0	0	0
HIST1H4B	8366	broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	26027331	26027331	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	HIST1H4B-70	NM_003544	exon1	c.G150C	p.L50F	ATAAATCAAACCG	.	217	21	187	1	.	1	1	0	0	0
SCUBE3	222663	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	35207577	35207577	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	SCUBE3-91	NM_152753	exon8	c.G878A	p.R293H	TTTGCCGCAACAC	.	146	65	132	0	.	0	0	0	0	0
SMIM8	57150	hgsc.bcm.edu	37	6	88046858	88046858	+	Missense_Mutation	SNP	G	G	T	rs141864670	alternate_allele	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	.	NM_001042493	exon3	c.G109T	p.V37L	CGTGCTGTGAATC	.	40	5	43	0	G|1.000;A|0.000	7	7	0	0	0
CTGF	1490	hgsc.bcm.edu	37	6	132271952	132271952	+	Missense_Mutation	SNP	G	G	C	rs7451102		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	CTGF-90	NM_001901	exon2	c.C247G	p.H83D	CGAAGTGACAGAA	.	6	6	0	0	G|0.000;C|1.000	0	0	0	0	0
CTGF	1490	hgsc.bcm.edu	37	6	132271959	132271959	+	Silent	SNP	T	T	G	rs12206231		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	CTGF-90	NM_001901	exon2	c.A240C	p.L80L	ACAGAATAGGCCC	.	5	5	0	0	T|0.000;G|1.000	0	0	0	0	0
MICALL2	79778	hgsc.bcm.edu	37	7	1484572	1484572	+	Silent	SNP	A	A	G	rs10435184		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	MICALL2-90	NM_182924	exon6	c.T1134C	p.G378G	TCCCCCACCCTGG	.	14	14	0	0	A|0.009;G|0.991	14	0	14	0	0
SP8	221833	broad.mit.edu	37	7	20824941	20824943	+	In_Frame_Del	DEL	GCC	GCC	-	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	SP8-91	NM_182700	exon2	c.493_495del	p.165_165del	GGAGGAGCCGCCG	.	80	8	11	0	.	0	0	0	0	0
GARS	2617	hgsc.bcm.edu	37	7	30634661	30634661	+	Missense_Mutation	SNP	C	C	G	rs1049402	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	GARS-91	NM_002047	exon1	c.C124G	p.P42A	TCCTGCCCCCCGA	.	23	23	0	0	C|0.329;G|0.671	7	0	7	0	0
CYP3A7	1551	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	99305480	99305480	+	Silent	SNP	G	G	C	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	CYP3A7-91	NM_000765	exon12	c.C1371G	p.V457V	GACTCTGACTAGA	.	590	36	257	0	.	1	1	0	0	0
CYP3A7	1551	broad.mit.edu;bcgsc.ca	37	7	99305519	99305519	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	CYP3A7-91	NM_000765	exon12	c.C1332T	p.G444G	CCTCATGCCAATG	.	819	48	408	2	.	78	78	0	0	0
ZNF775	285971	hgsc.bcm.edu	37	7	150094851	150094851	+	Missense_Mutation	SNP	A	A	G	rs13225910		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ZNF775-90	NM_173680	exon3	c.A1282G	p.T428A	CGGGACACGCTGT	.	7	7	1	0	A|0.578;G|0.422	0	0	0	0	0
ESYT2	57488	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	158534581	158534581	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ESYT2-92	NM_020728	exon17	c.C1882A	p.H628N	CGAGATGGAGCAC	.	57	7	106	0	.	0	0	0	0	0
MFHAS1	9258	hgsc.bcm.edu	37	8	8750467	8750467	+	Silent	SNP	A	A	G	rs1062988		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	MFHAS1-90	NM_004225	exon1	c.T102C	p.L34L	GGCGGTAAGCGTG	.	12	12	0	0	A|0.857;G|0.143	0	0	0	0	0
E2F5	1875	hgsc.bcm.edu	37	8	86089787	86089787	+	Silent	SNP	C	C	G	rs12926	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	E2F5-415	NM_001083588	exon1	c.C132G	p.A44A	GGGCGCCGGGGGC	.	7	7	0	0	C|0.434;G|0.566	0	0	0	0	0
EPPK1	83481	bcgsc.ca	37	8	144940267	144940267	+	Silent	SNP	G	G	A	rs28441354		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	EPPK1-25	NM_031308	exon1	c.C7155T	p.G2385G	GAAGAAGCCCTTG	.	489	34	176	1	G|0.995;A|0.005	0	0	0	0	0
SHARPIN	81858	hgsc.bcm.edu	37	8	145158503	145158503	+	Silent	SNP	G	G	T	rs11136254		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	SHARPIN-523	NM_030974	exon1	c.C154A	p.R52R	CAGGCCGCTCAGG	.	9	9	0	0	G|0.108;T|0.892	26	0	26	0	0
ZNF517	340385	hgsc.bcm.edu	37	8	146033347	146033347	+	Missense_Mutation	SNP	T	T	C	rs2976653		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	ZNF517-90	NM_213605	exon5	c.T1046C	p.V349A	GCGGCGTGGGGCA	.	20	20	0	0	G|0.992;C|0.006	1	0	1	0	0
GOLM1	51280	bcgsc.ca	37	9	88694179	88694179	+	Silent	SNP	G	G	T	rs3750389	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	GOLM1-22	NM_016548	exon2	c.C57A	p.A19A	CAGGGCGGCCAGC	.	92	5	79	0	G|0.799;T|0.201	20	20	0	0	0
DEC1	50514	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	9	118162667	118162667	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	DEC1-69	NM_017418	exon6	c.G43T	p.V15L	AGCATTGTGCCAG	.	107	20	106	0	.	0	0	0	0	0
CRB2	286204	hgsc.bcm.edu	37	9	126136139	126136139	+	Missense_Mutation	SNP	C	C	T	rs73571431		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	CRB2-91	NM_173689	exon10	c.C3329T	p.T1110M	GTCACACGCACCC	.	11	6	0	0	C|0.875;T|0.125	0	0	0	0	0
GTPBP6	8225	bcgsc.ca	37	X	229493	229493	+	Missense_Mutation	SNP	G	G	A	rs34297062		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	GTPBP6-40	.	.	.	.	GCCGGCGGAGCAG	.	254	7	147	2	G|0.935;A|0.065	23	23	0	0	0
CXorf28	100129464	bcgsc.ca	37	X	3190396	3190396	+	RNA	SNP	T	T	C	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	CXorf28-40	.	.	.	.	CAGCAATGGATAC	.	121	48	181	2	.	1	0	1	0	0
BCOR	54880	broad.mit.edu;bcgsc.ca	37	X	39931877	39931877	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	BCOR-229	NM_001123385	exon4	c.G2722C	p.D908H	GGCCATCGCTCCC	.	335	14	379	0	.	5	5	0	0	0
DCAF12L1	139170	hgsc.bcm.edu	37	X	125686536	125686536	+	Missense_Mutation	SNP	T	T	C	rs11095722	byfrequency	TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	DCAF12L1-132	NM_178470	exon1	c.A56G	p.D19G	TCGGCGTCCGCCT	.	58	8	0	0	T|0.888;C|0.112	0	0	0	0	0
PRR21	643905	hgsc.bcm.edu	37	2	240982368	240982369	+	Frame_Shift_Ins	INS	-	-	GATGAAGAGCCGTG	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	PRR21-70	NM_001080835	exon1	c.32_33insCACGGCTCTTCATC	p.P11fs	GGCCGTGGATGAA	.	153	37	161	0	.	0	0	0	0	0
PCDHB5	26167	hgsc.bcm.edu	37	5	140516736	140516737	+	In_Frame_Ins	INS	-	-	TGG	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	PCDHB5-95	NM_015669	exon1	c.1720_1721insTGG	p.L574delinsLV	ACCGAGCTGGTGC	.	64	25	1	0	.	0	0	0	0	0
RSBN1L	222194	hgsc.bcm.edu;broad.mit.edu	37	7	77326230	77326231	+	In_Frame_Ins	INS	-	-	GCCGCT	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	RSBN1L-91	NM_198467	exon1	c.444_445insGCCGCT	p.A148delinsAAA	CGCCGCCGCCGCT	.	49	14	14	0	.	0	0	0	0	0
FZD1	8321	hgsc.bcm.edu	37	7	90894459	90894460	+	In_Frame_Ins	INS	-	-	CCG	rs139480179		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	FZD1-658	NM_003505	exon1	c.264_265insCCG	p.Q88delinsQP	GCAGCAACCGCCG	.	51	39	2	0	-|0.606;CCG|0.394	0	0	0	0	0
OBSCN	84033	hgsc.bcm.edu	37	1	228504669	228504670	+	Missense_Mutation	DNP	GC	GC	AT	novel		TCGA-OR-A5K6-01A-11D-A29I-10	TCGA-OR-A5K6-10A-01D-A29L-10	GC	GC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	788cf29b-3505-4a07-b8f4-9c4caee33ad9	4da48703-c30a-4b4a-b8ae-9256618f3300	.	OBSCN-403	NM_001271223	exon62	c.C16417T	p.R5228W	TCTGCGCGGCTCA	.	35	0	0	0	C|0.643;T|0.357	0	0	0	0	0