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
GNB1	2782	broad.mit.edu	37	1	1737963	1737963	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	GNB1-227	NM_002074	exon6	c.C218A	p.A73D	TGCGAGGCACTGA	.	117	5	110	0	.	77	76	0	0	1
PDPN	10630	broad.mit.edu	37	1	13933776	13933776	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	PDPN-516	NM_006474	exon2	c.G404T	p.R135L	AAGACCGCTATAA	.	100	3	112	0	.	5	5	0	0	0
OPRD1	4985	hgsc.bcm.edu	37	1	29138975	29138975	+	Missense_Mutation	SNP	G	G	T	rs1042114	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	OPRD1-69	NM_000911	exon1	c.G80T	p.C27F	GCGCCTGCCCCAG	.	15	15	0	0	G|0.061;T|0.939	0	0	0	0	0
EPHA10	284656	hgsc.bcm.edu	37	1	38227086	38227086	+	Missense_Mutation	SNP	A	A	T	rs4653328	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	EPHA10-1246	NM_001099439	exon3	c.T841A	p.F281I	CGCAGAAGTCACC	.	15	6	0	0	A|0.665;T|0.335	0	0	0	0	0
KCNQ4	9132	bcgsc.ca	37	1	41288017	41288017	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	KCNQ4-90	NM_004700	exon8	c.G1073T	p.S358I	ATATGAGCCGGGC	.	59	4	41	0	.	0	0	0	0	0
TCTEX1D4	343521	hgsc.bcm.edu	37	1	45271828	45271828	+	Silent	SNP	T	T	C	rs17885815	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	TCTEX1D4-91	NM_001013632	exon2	c.A513G	p.V171V	ACTGCATACCAGC	.	17	9	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-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	FOXD3-226	NM_012183	exon1	c.C222A	p.P74P	GCCGCCCCACCAG	.	24	14	0	0	C|0.842;A|0.158	0	0	0	0	0
WNT2B	7482	hgsc.bcm.edu	37	1	113051909	113051909	+	Missense_Mutation	SNP	G	G	A	rs36006679		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	WNT2B-524	NM_024494	exon1	c.G25A	p.E9K	GCGGAGGAAGCTG	.	24	10	1	0	G|0.995;A|0.005	0	0	0	0	0
GON4L	54856	broad.mit.edu	37	1	155733245	155733245	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	GON4L-93	NM_001037533	exon22	c.G4584A	p.E1528E	TTCTTCCTCCTCT	.	31	5	36	0	.	6	6	0	0	0
GON4L	54856	broad.mit.edu	37	1	155733257	155733257	+	Silent	SNP	T	T	C	rs607834	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	GON4L-93	NM_001037533	exon22	c.A4572G	p.P1524P	TTCTTCTGGCTCA	.	32	6	35	0	T|0.054;C|0.946	1	1	0	0	0
F5	2153	broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	169526030	169526030	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	F5-157	NM_000130	exon6	c.T806C	p.I269T	AAATGAATGGAGA	.	75	12	82	1	.	0	0	0	0	0
C1orf106	55765	hgsc.bcm.edu	37	1	200880978	200880978	+	Missense_Mutation	SNP	C	C	T	rs296520	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	C1orf106-93	NM_018265	exon9	c.C1654T	p.R552C	GAGCTGCGCCGCG	.	31	21	0	0	C|0.242;T|0.758	0	0	0	0	0
KCTD3	51133	hgsc.bcm.edu	37	1	215741053	215741053	+	Missense_Mutation	SNP	T	T	G	rs2275768	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	KCTD3-93	NM_016121	exon1	c.T25G	p.F9V	GGCAGCTTCCCCG	.	19	8	1	0	T|0.721;G|0.279	2	1	1	0	0
GPRIN2	9721	ucsc.edu	37	10	46999601	46999601	+	Missense_Mutation	SNP	G	G	A	rs9422022	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	GPRIN2-90	NM_014696	exon3	c.G721A	p.V241M	AGGGAGGTGAGGG	.	94	14	94	0	G|0.639;A|0.361	0	0	0	0	0
LIPM	340654	broad.mit.edu	37	10	90580144	90580144	+	Silent	SNP	C	C	T	rs10788615	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	LIPM-69	NM_001128215	exon9	c.C1158T	p.H386H	GGCTCACGTGGAT	.	143	5	179	2	C|0.706;N|0.000	0	0	0	0	0
HECTD2	143279	hgsc.bcm.edu	37	10	93170250	93170250	+	Missense_Mutation	SNP	C	C	G	rs7081569	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	HECTD2-658	NM_182765	exon1	c.C55G	p.P19A	GCGGCGCCCGCGC	.	4	4	0	0	C|0.154;G|0.846	0	0	0	0	0
METTL10	399818	hgsc.bcm.edu	37	10	126480361	126480361	+	Silent	SNP	C	C	G	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	METTL10-22	NM_212554	exon1	c.G42C	p.A14A	CCGCGCCGCCACC	.	115	30	6	0	.	5	4	1	0	0
PWWP2B	170394	hgsc.bcm.edu	37	10	134219036	134219036	+	Silent	SNP	G	G	A	rs11817589	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	PWWP2B-90	NM_001098637	exon2	c.G1032A	p.E344E	CAGCGAGCACGAG	.	15	12	0	0	G|0.909;A|0.091	10	10	0	0	0
PWWP2B	170394	hgsc.bcm.edu	37	10	134219045	134219045	+	Silent	SNP	C	C	T	rs11146364	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	PWWP2B-90	NM_001098637	exon2	c.C1041T	p.P347P	CGAGCCCGTGTAC	.	17	13	0	0	C|0.860;T|0.140	8	8	0	0	0
KRTAP5-5	439915	broad.mit.edu	37	11	1651189	1651192	+	Frame_Shift_Del	DEL	CCGG	CCGG	-	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	KRTAP5-5-23	NM_001001480	exon1	c.119_122del	p.40_41del	GTGGCTCCGGCTG	.	152	7	49	0	.	0	0	0	0	0
KRTAP5-5	439915	bcgsc.ca	37	11	1651241	1651241	+	Silent	SNP	A	A	C	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	KRTAP5-5-23	NM_001001480	exon1	c.A171C	p.G57G	TGGGGGATGTGGC	.	121	16	108	1	.	0	0	0	0	0
SYT8	90019	hgsc.bcm.edu	37	11	1858572	1858572	+	Missense_Mutation	SNP	C	C	T	rs2292474	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	SYT8-91	NM_138567	exon9	c.C1117T	p.R373W	GCCCAGCGGCACC	.	22	18	0	0	C|0.602;T|0.398	0	0	0	0	0
PRKCDBP	112464	hgsc.bcm.edu	37	11	6341365	6341365	+	Silent	SNP	C	C	T	rs11544764	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	PRKCDBP-115	NM_145040	exon1	c.G342A	p.G114G	CAGCAGCCCGTGG	.	6	6	1	0	C|0.902;T|0.098	107	6	100	0	1
PRKCDBP	112464	hgsc.bcm.edu	37	11	6341397	6341397	+	Missense_Mutation	SNP	C	C	T	rs10839551	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	PRKCDBP-115	NM_145040	exon1	c.G310A	p.A104T	CCTGGGCTGCGCG	.	6	6	0	0	C|0.990;T|0.010	129	7	122	0	0
WT1	7490	hgsc.bcm.edu	37	11	32456694	32456694	+	Silent	SNP	C	C	A	rs2234582	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	WT1-6891	NM_024424	exon1	c.G198T	p.P66P	TTGCTGCGGCTCA	.	8	5	0	0	C|0.748;A|0.252	0	0	0	0	0
B3GNT6	192134	hgsc.bcm.edu	37	11	76751542	76751542	+	Splice_Site	DEL	T	T	-	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	.	NM_138706	exon2	c.946+1T>-	.	TGTGTCTTGGAGC	.	22	21	0	0	.	0	0	0	0	0
B3GNT6	192134	hgsc.bcm.edu	37	11	76751585	76751604	+	In_Frame_Del	DEL	TGGCCCTTCGGCGTGCAGCT	TGGCCCTTCGGCGTGCAGCT	-	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	TGGCCCTTCGGCGTGCAGCT	TGGCCCTTCGGCGTGCAGCT	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	.	NM_138706	exon4	c.989_1006del	p.330_336del	GCATCCTGGCCCT	.	32	0	0	0	.	0	0	0	0	0
MTNR1B	4544	hgsc.bcm.edu	37	11	92702962	92702962	+	Missense_Mutation	SNP	G	G	A	rs8192552	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	MTNR1B-522	NM_005959	exon1	c.G71A	p.G24E	GGTCGGGGGCTGG	.	27	15	1	0	G|0.942;A|0.058	0	0	0	0	0
APOLD1	81575	hgsc.bcm.edu	37	12	12939892	12939892	+	Missense_Mutation	SNP	G	G	A	rs4763876		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	APOLD1-91	NM_001130415	exon2	c.G146A	p.R49Q	CGCTGCGGCGCTT	.	9	6	0	0	G|0.943;A|0.057	0	0	0	0	0
ARNTL2	56938	bcgsc.ca	37	12	27553566	27553566	+	Missense_Mutation	SNP	A	A	G	rs1037921	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ARNTL2-92	NM_020183	exon10	c.A1019G	p.N340S	AAGACAACAGTAA	.	98	6	85	0	A|0.963;G|0.037	3	3	0	0	0
FOXN4	121643	hgsc.bcm.edu	37	12	109719559	109719559	+	Missense_Mutation	SNP	C	C	T	rs61741949	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	FOXN4-227	NM_213596	exon9	c.G947A	p.R316H	CCGGGGCGCCGGC	.	35	13	7	0	C|0.994;T|0.006	0	0	0	0	0
CCDC42B	387885	broad.mit.edu	37	12	113589762	113589762	+	Silent	SNP	A	A	G	rs61738692	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	.	NM_001144872	exon2	c.A96G	p.V32V	ACCAGTACTGCGT	.	93	4	62	1	A|0.959;G|0.041	0	0	0	0	0
DNAH10	196385	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	12	124345570	124345570	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	DNAH10-95	NM_207437	exon38	c.C6407T	p.T2136M	GGCTGACGACAAA	.	124	8	105	0	.	0	0	0	0	0
C14orf39	317761	bcgsc.ca	37	14	60903757	60903757	+	Missense_Mutation	SNP	G	G	A	rs1254319	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	C14orf39-94	NM_174978	exon18	c.C1570T	p.L524F	TCTCAAGTAAGTT	.	110	5	145	0	G|0.588;A|0.412	0	0	0	0	0
ALDH6A1	4329	hgsc.bcm.edu;bcgsc.ca	37	14	74534125	74534125	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ALDH6A1-90	NM_005589	exon8	c.C1000A	p.P334T	GCTCTGGCAGCCA	.	69	4	91	0	.	12	11	1	0	0
RIN3	79890	hgsc.bcm.edu	37	14	93154540	93154540	+	Silent	SNP	C	C	T	rs71461983	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	RIN3-522	NM_024832	exon10	c.C2901T	p.G967G	TGGTGGCGGCGGC	.	73	38	2	0	C|0.974;T|0.026	41	25	16	0	0
LGMN	5641	bcgsc.ca	37	14	93170993	93170993	+	Silent	SNP	C	C	T	rs9791	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	LGMN-91	NM_005606	exon13	c.G1251A	p.P417P	GTGAAGCGGATAC	.	221	10	218	1	C|0.681;T|0.319	0	0	0	0	0
CEP170B	283638	ucsc.edu	37	14	105349388	105349388	+	Silent	SNP	A	A	C	rs2028414	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	.	NM_001112726	exon8	c.A594C	p.P198P	GGGACCAGTGCAG	.	53	19	10	0	A|0.511;C|0.489	0	0	0	0	0
PHGR1	644844	hgsc.bcm.edu	37	15	40648372	40648372	+	Silent	SNP	T	T	C	rs12900982	byfrequency;by1000genomes	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	.	NM_001145643	exon3	c.T117C	p.G39G	CCATGGTCCAGGG	.	31	14	4	0	T|0.839;C|0.161	0	0	0	0	0
EME2	197342	hgsc.bcm.edu	37	16	1823444	1823444	+	Silent	SNP	C	C	G	rs761065		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	EME2-229	NM_001257370	exon1	c.C216G	p.V72V	GCAGGTCCTGAAG	.	7	5	0	0	C|0.615;G|0.385	0	0	0	0	0
ADAD2	161931	hgsc.bcm.edu	37	16	84224967	84224967	+	Missense_Mutation	SNP	G	G	A	rs8044695	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ADAD2-68	NM_001145400	exon1	c.G131A	p.G44E	CCTGGGGGCCCGC	.	14	14	0	0	G|0.292;A|0.708	0	0	0	0	0
ZFPM1	161882	hgsc.bcm.edu	37	16	88599659	88599659	+	Missense_Mutation	SNP	G	G	T	rs71395304	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ZFPM1-90	NM_153813	exon10	c.G1293T	p.K431N	CAGAAAGGCCCTG	.	25	25	0	0	G|0.858;T|0.142	0	0	0	0	0
ZFPM1	161882	hgsc.bcm.edu	37	16	88599696	88599697	+	Frame_Shift_Del	DEL	GA	GA	-	rs67549438	alternate_allele	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	GA	GA	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ZFPM1-90	NM_153813	exon10	c.1330_1331del	p.444_444del	AGAGCGGAGCCTC	.	17	14	0	0	.	0	0	0	0	0
ZFPM1	161882	hgsc.bcm.edu	37	16	88599697	88599705	+	In_Frame_Del	DEL	AGCCTCTGG	AGCCTCTGG	-	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	AGCCTCTGG	AGCCTCTGG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ZFPM1-90	NM_153813	exon10	c.1331_1339del	p.444_447del	GAGCGGAGCCTCT	.	17	0	0	0	.	0	0	0	0	0
ZFPM1	161882	hgsc.bcm.edu	37	16	88599701	88599701	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ZFPM1-90	NM_153813	exon10	c.1335delT	p.P445fs	GGAGCCTCTGGCC	.	16	14	0	0	.	0	0	0	0	0
ZFPM1	161882	hgsc.bcm.edu	37	16	88599703	88599705	+	In_Frame_Del	DEL	TGG	TGG	-	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	TGG	TGG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ZFPM1-90	NM_153813	exon10	c.1337_1339del	p.446_447del	AGCCTCTGGCCCA	.	15	14	0	0	.	0	0	0	0	0
C17orf97	400566	hgsc.bcm.edu	37	17	260182	260182	+	Silent	SNP	T	T	C	rs7502594		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	C17orf97-91	NM_001013672	exon1	c.T49C	p.L17L	CGCCGATTAGTCG	.	28	18	0	0	T|0.657;C|0.343	0	0	0	0	0
RILP	83547	hgsc.bcm.edu	37	17	1553040	1553040	+	Missense_Mutation	SNP	C	C	T	rs200942821		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	RILP-91	NM_031430	exon1	c.G59A	p.G20E	GCCGACCCCGCGG	.	10	5	0	0	.	1	0	1	0	0
PRPF8	10594	broad.mit.edu	37	17	1583078	1583078	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	PRPF8-525	NM_006445	exon9	c.C1114A	p.P372T	CATCCGGCAATGG	.	83	2	108	0	.	3	3	0	0	0
GLTPD2	388323	hgsc.bcm.edu	37	17	4693342	4693342	+	Missense_Mutation	SNP	C	C	A	rs35910358		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	GLTPD2-68	NM_001014985	exon4	c.C627A	p.D209E	CCCGGACGCGGGC	.	5	5	0	0	C|0.015;A|0.985	0	0	0	0	0
GIT1	28964	bcgsc.ca	37	17	27904711	27904711	+	Silent	SNP	G	G	A	rs11080105	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	GIT1-251	NM_001085454	exon11	c.C960T	p.A320A	GGGCACGGCACTG	.	106	6	143	1	G|0.638;A|0.362	11	11	0	0	0
KRTAP4-3	85290	ucsc.edu;bcgsc.ca	37	17	39324333	39324333	+	Missense_Mutation	SNP	T	T	A	rs12953139	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	KRTAP4-3-22	NM_033187	exon1	c.A92T	p.Q31L	GTGGTCTGGCAGC	.	225	42	168	3	A|0.046;T|0.954	0	0	0	0	0
SDK2	54549	broad.mit.edu	37	17	71386527	71386527	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	SDK2-24	NM_001144952	exon29	c.G4091T	p.G1364V	TTGAGGCCCGTGG	.	137	9	120	3	.	0	0	0	0	0
NPTX1	4884	hgsc.bcm.edu	37	17	78449948	78449948	+	Missense_Mutation	SNP	C	C	T	rs144443274		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	NPTX1-90	NM_002522	exon1	c.G299A	p.G100D	GCCTCGCCGGCTC	.	18	12	0	0	C|0.910;T|0.090	0	0	0	0	0
TGIF1	7050	broad.mit.edu	37	18	3452223	3452223	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	TGIF1-227	NM_170695	exon1	c.246delT	p.P82fs	CCCCCCTCCTCCA	.	47	18	6	0	.	0	0	0	0	0
CBLN2	147381	hgsc.bcm.edu	37	18	70209321	70209321	+	Silent	SNP	C	C	A	rs7237888		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	CBLN2-90	NM_182511	exon3	c.G75T	p.P25P	GCCGCCCGGCTCG	.	9	9	0	0	C|0.390;A|0.610	0	0	0	0	0
POLRMT	5442	hgsc.bcm.edu	37	19	621561	621561	+	Missense_Mutation	SNP	C	C	A	rs10421235		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	POLRMT-92	NM_005035	exon10	c.G2137T	p.V713L	CCAGCACGCGCCC	.	27	13	0	0	C|0.918;A|0.082	5	3	2	0	0
LPPR3	0	hgsc.bcm.edu	37	19	813220	813220	+	Missense_Mutation	SNP	T	T	C	rs351994		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	.	NM_024888	exon7	c.A1591G	p.T531A	CCCCCGTCTGCGC	.	6	6	0	0	T|0.751;C|0.249	0	0	0	0	0
ARID3A	1820	hgsc.bcm.edu	37	19	929753	929753	+	Silent	SNP	A	A	G	rs1799595		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ARID3A-90	NM_005224	exon2	c.A225G	p.P75P	ACACCCAGCCAGC	.	5	5	0	0	A|0.114;G|0.886	3	0	3	0	0
TCF3	6929	hgsc.bcm.edu	37	19	1619333	1619333	+	Silent	SNP	G	G	A	rs1140828	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	TCF3-721	NM_003200	exon15	c.C1308T	p.G436G	CCGCCCGCCCAGT	.	17	14	2	0	G|0.749;A|0.251	9	9	0	0	0
TCF3	6929	hgsc.bcm.edu	37	19	1619339	1619339	+	Silent	SNP	T	T	C	rs8140	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	TCF3-721	NM_003200	exon15	c.A1302G	p.S434S	GCCCAGTGACATG	.	18	14	1	0	T|0.403;C|0.597	6	6	0	0	0
TCF3	6929	hgsc.bcm.edu	37	19	1619348	1619348	+	Silent	SNP	G	G	A	rs1052696	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	TCF3-721	NM_003200	exon15	c.C1293T	p.G431G	CATGGGGCCGGTG	.	16	12	1	0	G|0.903;A|0.097	8	8	0	0	0
TCF3	6929	hgsc.bcm.edu	37	19	1619350	1619350	+	Missense_Mutation	SNP	C	C	T	rs1052692	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	TCF3-721	NM_003200	exon15	c.G1291A	p.G431S	TGGGGCCGGTGAA	.	16	12	1	0	C|0.901;T|0.099	8	8	0	0	0
DOT1L	84444	hgsc.bcm.edu	37	19	2220170	2220170	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	DOT1L-132	NM_032482	exon23	c.G2755T	p.G919C	CAGATTGGTGCTA	.	80	4	102	0	.	4	4	0	0	0
PLIN5	440503	hgsc.bcm.edu	37	19	4531658	4531658	+	Silent	SNP	G	G	A	rs138772557	by1000genomes	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	PLIN5-22	NM_001013706	exon3	c.C237T	p.L79L	GTGCTCGAGCAGC	.	104	54	7	0	G|0.998;A|0.002	1	1	0	0	0
OR7G1	125962	bcgsc.ca	37	19	9225685	9225685	+	Missense_Mutation	SNP	T	T	C	rs2195951	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	OR7G1-70	NM_001005192	exon1	c.A755G	p.Y252C	GTCCCATAGAACA	.	82	4	112	0	T|0.690;C|0.310	0	0	0	0	0
KLF1	10661	hgsc.bcm.edu	37	19	12996500	12996500	+	Missense_Mutation	SNP	A	A	G	rs2072596	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	KLF1-90	NM_006563	exon2	c.T544C	p.F182L	GCGGGAAGTAGCC	.	6	5	2	0	A|0.946;G|0.054	0	0	0	0	0
UQCRFS1	7386	hgsc.bcm.edu	37	19	29704002	29704002	+	Silent	SNP	T	T	C	rs11666764	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	UQCRFS1-226	NM_006003	exon1	c.A24G	p.S8S	CGGGCCTGAGCGG	.	4	4	0	0	T|0.072;C|0.928	0	0	0	0	0
UQCRFS1	7386	hgsc.bcm.edu	37	19	29704010	29704010	+	Missense_Mutation	SNP	A	A	C	rs8100724	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	UQCRFS1-226	NM_006003	exon1	c.T16G	p.S6A	AGCGGGATGCTAC	.	4	4	0	0	A|0.065;C|0.935	0	0	0	0	0
GGN	199720	hgsc.bcm.edu	37	19	38876464	38876464	+	Missense_Mutation	SNP	C	C	G	rs11083455		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	GGN-90	NM_152657	exon3	c.G1438C	p.A480P	GGGCTGCGGTGGG	.	10	4	0	0	C|0.789;G|0.211	0	0	0	0	0
FBXO17	115290	hgsc.bcm.edu	37	19	39440918	39440918	+	Silent	SNP	T	T	C	rs2304117	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	FBXO17-226	NM_148169	exon2	c.A69G	p.P23P	CAGGGATGGGTCC	.	19	6	4	0	T|0.545;C|0.455	11	6	5	0	0
PTGIR	5739	hgsc.bcm.edu	37	19	47127324	47127324	+	Silent	SNP	C	C	G	rs2229128	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	PTGIR-522	NM_000960	exon2	c.G159C	p.V53V	TCCGGTCACCAGC	.	18	11	0	0	C|0.254;G|0.746	0	0	0	0	0
KCNA7	3743	hgsc.bcm.edu	37	19	49575618	49575618	+	Silent	SNP	A	A	G	rs71352730	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	KCNA7-90	NM_031886	exon1	c.T225C	p.G75G	CCGCCCACCGGAC	.	13	8	3	0	A|0.868;G|0.132	0	0	0	0	0
ASPDH	554235	hgsc.bcm.edu	37	19	51015404	51015404	+	Missense_Mutation	SNP	T	T	C	rs12977172	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ASPDH-90	NM_001114598	exon6	c.A797G	p.Q266R	AGGCTCTGCCAGA	.	9	9	0	0	T|0.228;C|0.772	0	0	0	0	0
SSC5D	284297	hgsc.bcm.edu	37	19	56000809	56000809	+	Silent	SNP	C	C	T	rs142097230	by1000genomes	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	.	NM_001195267	exon3	c.C141T	p.D47D	TGATGACGGCTGG	.	32	21	0	0	C|0.989;T|0.011	0	0	0	0	0
SSC5D	284297	hgsc.bcm.edu	37	19	56000896	56000896	+	Silent	SNP	G	G	T	rs62130160	bycluster;byfrequency;by1000genomes	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	.	NM_001195267	exon3	c.G228T	p.G76G	CTTCGGGGAGGGG	.	4	4	0	0	G|0.897;T|0.103	0	0	0	0	0
ZNF787	126208	hgsc.bcm.edu	37	19	56599438	56599440	+	In_Frame_Del	DEL	TCG	TCG	-	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	TCG	TCG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ZNF787-69	NM_001002836	exon3	c.1101_1103del	p.367_368del	GCGGCCTCGTCGT	.	14	13	0	0	.	0	0	0	0	0
TPO	7173	hgsc.bcm.edu	37	2	1481155	1481155	+	Missense_Mutation	SNP	G	G	T	rs2280132	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	TPO-332	NM_175719	exon8	c.G1117T	p.A373S	GCGCCTGCGGCCT	.	9	9	0	0	G|0.569;T|0.431	0	0	0	0	0
TPO	7173	hgsc.bcm.edu	37	2	1481231	1481231	+	Missense_Mutation	SNP	G	G	C	rs2175977	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	TPO-332	NM_175719	exon8	c.G1193C	p.S398T	GCGCCAGCGAGGT	.	7	7	1	0	G|0.301;C|0.699	0	0	0	0	0
CMPK2	129607	hgsc.bcm.edu	37	2	7005369	7005369	+	Silent	SNP	A	A	G	rs11678810		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	CMPK2-68	NM_001256478	exon1	c.T459C	p.C153C	CTCCTGACAGGCG	.	5	5	0	0	A|0.003;G|0.997	4	0	4	0	0
NT5C1B	93034	hgsc.bcm.edu	37	2	18766156	18766156	+	Nonsense_Mutation	SNP	G	G	T	rs61742596	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	NT5C1B-47	NM_001199087	exon5	c.C578A	p.S193X	TGGAGCGAGGGCT	.	16	12	1	0	G|0.950;T|0.050	0	0	0	0	0
C2orf81	388963	broad.mit.edu	37	2	74642280	74642280	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	.	NM_001145054	exon4	c.A943C	p.T315P	GGCGGGTGGCGCC	.	182	52	50	4	.	1	1	0	0	0
TTC31	64427	bcgsc.ca	37	2	74717206	74717206	+	Missense_Mutation	SNP	C	C	T	rs202055795		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	TTC31-90	NM_022492	exon3	c.C184T	p.R62W	CTGCACCGGATCC	.	136	6	189	3	.	6	6	0	0	0
ATOH8	84913	hgsc.bcm.edu	37	2	85981761	85981761	+	Missense_Mutation	SNP	T	T	C	rs17851881		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ATOH8-90	NM_032827	exon1	c.T449C	p.L150P	CGGGTCTGCGTCC	.	4	4	0	0	T|0.382;C|0.618	0	0	0	0	0
CD8B	926	hgsc.bcm.edu	37	2	87088964	87088964	+	Silent	SNP	A	A	G	rs62146888	byfrequency;by1000genomes	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	CD8B-92	NM_004931	exon1	c.T25C	p.L9L	CGGCCAAGAGGAG	.	4	4	1	0	A|0.476;G|0.524	1	0	1	0	0
TEKT4	150483	hgsc.bcm.edu	37	2	95539855	95539855	+	Splice_Site	SNP	T	T	G	rs201662522	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	TEKT4-155	NM_144705	exon3	c.713+2T>G	.	GAGAGGTGGGCCC	.	122	10	126	0	T|0.970;G|0.030	1	0	1	0	0
RNF149	284996	hgsc.bcm.edu	37	2	101925026	101925026	+	Missense_Mutation	SNP	T	T	C	rs11123868	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	RNF149-290	NM_173647	exon1	c.A25G	p.S9G	CGACGCTGGCTTC	.	6	4	0	0	T|0.543;C|0.457	2	1	1	0	0
SOWAHC	65124	hgsc.bcm.edu	37	2	110372192	110372192	+	Silent	SNP	A	A	G	rs6594048		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	.	NM_023016	exon1	c.A126G	p.L42L	CGCCCTAGGCGGC	.	14	14	0	0	A|0.029;G|0.971	0	0	0	0	0
RAB3GAP1	22930	ucsc.edu	37	2	135926240	135926240	+	Silent	SNP	G	G	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	RAB3GAP1-92	NM_001172435	exon25	c.G2856T	p.V952V	CACTGTGCCGCGC	.	130	4	74	2	.	41	33	8	0	0
SP5	389058	hgsc.bcm.edu	37	2	171572937	171572937	+	Missense_Mutation	SNP	A	A	T	rs199988182	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	SP5-90	NM_001003845	exon2	c.A220T	p.T74S	CCGTGGACCGCCG	.	14	9	2	0	A|0.994;T|0.006	0	0	0	0	0
ACSL3	2181	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	223782837	223782837	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ACSL3-228	NM_203372	exon5	c.C630T	p.I210I	CAACATCATTACT	.	81	13	56	0	.	5	4	1	0	0
ALPPL2	251	hgsc.bcm.edu	37	2	233274475	233274475	+	Missense_Mutation	SNP	C	C	A	rs56080708	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ALPPL2-91	NM_031313	exon11	c.C1492A	p.R498S	GCGCCCCGCGCCG	.	25	12	0	0	C|0.901;A|0.099	0	0	0	0	0
ESPNL	339768	hgsc.bcm.edu	37	2	239009336	239009336	+	Silent	SNP	G	G	A	rs61744770	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ESPNL-69	NM_194312	exon1	c.G276A	p.E92E	CCGCGAGGGGGGC	.	5	5	0	0	G|0.739;A|0.261	0	0	0	0	0
TCF15	6939	hgsc.bcm.edu	37	20	590456	590456	+	Silent	SNP	A	A	G	rs282164	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	TCF15-90	NM_004609	exon1	c.T426C	p.R142R	CGCGGCACGGAAG	.	13	13	0	0	A|0.165;G|0.835	3	0	3	0	0
FASTKD5	60493	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	20	3128060	3128060	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	FASTKD5-90	NM_021826	exon2	c.A1657G	p.M553V	AATTCATATCCTT	.	96	5	89	0	.	15	15	0	0	0
PANK2	80025	hgsc.bcm.edu	37	20	3870124	3870124	+	Missense_Mutation	SNP	G	G	C	rs3737084	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	PANK2-115	NM_153638	exon1	c.G377C	p.G126A	TGGGAGGGGGCCG	.	5	5	0	0	G|0.122;C|0.878	1	0	1	0	0
MROH8	140699	bcgsc.ca	37	20	35783494	35783494	+	Missense_Mutation	SNP	T	T	C	rs1615246	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	.	.	.	.	.	AGGCACTTCAGAA	.	92	4	98	0	T|0.572;C|0.428	0	0	0	0	0
ACTR5	79913	hgsc.bcm.edu	37	20	37377139	37377139	+	Silent	SNP	C	C	T	rs2254105	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ACTR5-90	NM_024855	exon1	c.C18T	p.F6F	CGTGTTCCCGTTC	.	19	12	0	0	C|0.769;T|0.231	0	0	0	0	0
DNTTIP1	116092	hgsc.bcm.edu	37	20	44420682	44420682	+	Silent	SNP	T	T	C	rs2664591	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	DNTTIP1-91	NM_052951	exon1	c.T39C	p.P13P	GGGACCTAGCGGG	.	5	5	0	0	T|0.311;C|0.689	2	0	2	0	0
OGFR	11054	hgsc.bcm.edu	37	20	61444633	61444633	+	Missense_Mutation	SNP	G	G	A	rs75570150		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	OGFR-68	NM_007346	exon7	c.G1666A	p.E556K	CCAGCCGAGAGCC	.	28	8	0	0	.	245	245	0	0	0
OGFR	11054	hgsc.bcm.edu	37	20	61444637	61444637	+	Missense_Mutation	SNP	G	G	C	rs78981100		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	OGFR-68	NM_007346	exon7	c.G1670C	p.S557T	CCGAGAGCCCATC	.	26	9	0	0	.	244	243	1	0	0
CLIC6	54102	hgsc.bcm.edu	37	21	36042579	36042579	+	Missense_Mutation	SNP	C	C	G	rs13049028	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	CLIC6-91	NM_053277	exon1	c.C892G	p.Q298E	CCGCAGCAATCGG	.	16	6	4	0	C|0.802;G|0.198	0	0	0	0	0
CLIC6	54102	hgsc.bcm.edu	37	21	36042584	36042584	+	Silent	SNP	G	G	A	rs13049239	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	CLIC6-91	NM_053277	exon1	c.G897A	p.S299S	GCAATCGGGGGAC	.	17	7	4	0	G|0.803;A|0.197	0	0	0	0	0
KRTAP10-7	386675	broad.mit.edu	37	21	46020669	46020670	+	Splice_Site	DEL	AG	AG	-	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	.	.	.	.	.	GCCCCCAGCTGCT	.	91	10	21	0	.	0	0	0	0	0
MRPL40	64976	hgsc.bcm.edu	37	22	19422330	19422330	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	MRPL40-90	NM_003776	exon3	c.G209T	p.R70M	TGAAAAGGAAGAT	.	69	4	66	0	.	112	112	0	0	0
SCARF2	91179	hgsc.bcm.edu	37	22	20780091	20780091	+	Silent	SNP	C	C	G	rs77189880	bycluster;byfrequency;by1000genomes	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	SCARF2-341	NM_153334	exon11	c.G2187C	p.P729P	CAGCCCCGGGGGG	.	7	7	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-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	SCARF2-341	NM_153334	exon11	c.C2181G	p.R727R	CGGGGGGCGCGGC	.	7	7	0	0	G|0.826;C|0.174	0	0	0	0	0
LRIG1	26018	hgsc.bcm.edu	37	3	66550756	66550756	+	Missense_Mutation	SNP	G	G	C	rs1403625		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	LRIG1-230	NM_015541	exon1	c.C76G	p.L26V	GCCGAAGCAAAAG	.	6	6	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-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	LRIG1-230	NM_015541	exon1	c.C70G	p.L24V	GCAAAAGCAGCCA	.	6	6	0	0	G|0.252;C|0.748	0	0	0	0	0
SEMA5B	54437	hgsc.bcm.edu	37	3	122631896	122631896	+	Missense_Mutation	SNP	A	A	T	rs2276782	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	SEMA5B-157	NM_001256347	exon18	c.T2681A	p.V894D	AGGAGGACCTCCA	.	9	6	0	0	T|0.412;A|0.588	0	0	0	0	0
CRIPAK	285464	bcgsc.ca	37	4	1388817	1388817	+	Missense_Mutation	SNP	C	C	G	rs71299249	alternate_allele	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	CRIPAK-90	NM_175918	exon1	c.C518G	p.P173R	CGTGCCCATGTGG	.	182	32	43	0	CATGT|0.500;GACGC|0.500	90	90	0	0	0
CRIPAK	285464	bcgsc.ca	37	4	1388819	1388819	+	Missense_Mutation	SNP	T	T	C	rs144797159	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	CRIPAK-90	NM_175918	exon1	c.T520C	p.C174R	TGCCCATGTGGAG	.	180	25	46	1	T|0.950;C|0.050	89	89	0	0	0
DOK7	285489	hgsc.bcm.edu	37	4	3495095	3495095	+	Missense_Mutation	SNP	G	G	A	rs9684786	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	DOK7-91	NM_173660	exon7	c.G1382A	p.G461D	CCCAGGGCAGCGA	.	21	14	0	0	G|0.834;A|0.166	0	0	0	0	0
OTOP1	133060	broad.mit.edu	37	4	4228274	4228282	+	In_Frame_Del	DEL	CCACAGCAG	CCACAGCAG	-	rs75328065	alternate_allele	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	OTOP1-92	NM_177998	exon1	c.310_318del	p.104_106del	CAGCATCCACAGC	.	62	11	6	0	.	0	0	0	0	0
OTOP1	133060	hgsc.bcm.edu	37	4	4228456	4228456	+	Silent	SNP	G	G	T	rs73191872	bycluster;by1000genomes	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	OTOP1-92	NM_177998	exon1	c.C136A	p.R46R	CGCCCCGCCGGGG	.	75	20	8	0	.	0	0	0	0	0
OTOP1	133060	hgsc.bcm.edu	37	4	4228472	4228472	+	Silent	SNP	T	T	C	rs76810534		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	OTOP1-92	NM_177998	exon1	c.A120G	p.E40E	CGGGGATTCCGGG	.	49	14	6	0	.	0	0	0	0	0
CCDC96	257236	hgsc.bcm.edu	37	4	7044357	7044357	+	Silent	SNP	A	A	G	rs871133		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	CCDC96-90	NM_153376	exon1	c.T309C	p.V103V	AGCCCCAACCTCG	.	4	4	0	0	A|0.036;G|0.964	1	0	1	0	0
CXCL3	2921	hgsc.bcm.edu	37	4	74904296	74904296	+	Missense_Mutation	SNP	G	G	T	rs182216932		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	CXCL3-514	NM_002090	exon1	c.C33A	p.S11R	GGGATTGCTGGGG	.	21	13	0	0	G|0.942;T|0.058	35	35	0	0	0
ADH1A	124	ucsc.edu	37	4	100203572	100203572	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ADH1A-227	NM_000667	exon6	c.G759A	p.E253E	TAGCACCTCCTGG	.	334	12	293	6	.	551	1	548	2	0
RAPGEF2	9693	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	160252876	160252876	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	RAPGEF2-637	NM_014247	exon9	c.C1187G	p.P396R	AAGCTCCTTTGCC	.	146	47	182	0	.	5	2	3	0	0
PDLIM3	27295	broad.mit.edu;bcgsc.ca	37	4	186456520	186456520	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	PDLIM3-92	NM_001257963	exon1	c.C69A	p.F23L	CTGGTTGAAGTCT	.	336	14	278	0	.	2	2	0	0	0
NSUN2	54888	hgsc.bcm.edu	37	5	6633042	6633042	+	Silent	SNP	C	C	T	rs10062086	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	NSUN2-91	NM_017755	exon1	c.G51A	p.E17E	CGCGTCCTCCGGC	.	4	4	0	0	C|0.687;T|0.313	1	0	1	0	0
SRD5A1	6715	hgsc.bcm.edu	37	5	6633779	6633779	+	Silent	SNP	C	C	G	rs248793	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	SRD5A1-90	NM_001047	exon1	c.C90G	p.R30R	CGCGCGCAATCGT	.	4	4	0	0	C|0.454;G|0.546	3	0	3	0	0
ADAMTS6	11174	hgsc.bcm.edu;bcgsc.ca	37	5	64468661	64468661	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ADAMTS6-226	NM_197941	exon23	c.C3085T	p.Q1029X	TTACCTGGCCCCA	.	71	6	84	0	.	0	0	0	0	0
RGMB	285704	hgsc.bcm.edu	37	5	98109838	98109838	+	Missense_Mutation	SNP	A	A	C	rs2662263		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	.	NM_001012761	exon3	c.A187C	p.S63R	CGCCGCAGCCCCG	.	7	7	0	0	T|0.046;G|0.950	0	0	0	0	0
ADAMTS19	171019	hgsc.bcm.edu	37	5	128797105	128797105	+	Silent	SNP	G	G	A	rs72663400	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ADAMTS19-295	NM_133638	exon2	c.G384A	p.G128G	CAGCGGGGCTGCC	.	8	5	1	0	G|0.815;A|0.185	0	0	0	0	0
PCDHA8	56140	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	140222697	140222697	+	Silent	SNP	G	G	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	PCDHA8-92	NM_031856	exon1	c.G1791T	p.V597V	CGCAGTGGACGCC	.	283	44	90	0	.	0	0	0	0	0
PCDHB7	56129	broad.mit.edu	37	5	140553994	140553994	+	Silent	SNP	G	G	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	PCDHB7-95	NM_018940	exon1	c.G1578T	p.A526A	GCAGGCGTTCGAG	.	430	13	149	0	.	24	14	10	0	0
PCDHB10	56126	broad.mit.edu	37	5	140574170	140574175	+	In_Frame_Del	DEL	AGGCCG	AGGCCG	-	rs58244182	bycluster;alternate_allele	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	PCDHB10-92	NM_018930	exon1	c.2045_2050del	p.682_684del	AGGCCCAGGCCGA	.	66	10	10	0	-|0.750;GGCCGA|0.250	0	0	0	0	0
HK3	3101	bcgsc.ca	37	5	176318043	176318043	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	HK3-294	NM_002115	exon4	c.C409T	p.Q137X	CCTGCTGGCCAGC	.	79	29	94	3	.	0	0	0	0	0
HLA-B	3106	hgsc.bcm.edu	37	6	31323953	31323960	+	Frame_Shift_Del	DEL	CCAGCTTG	CCAGCTTG	-	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	CCAGCTTG	CCAGCTTG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	HLA-B-90	NM_005514	exon3	c.603_610del	p.201_204del	CGCGCTCCAGCTT	.	64	0	39	0	.	0	0	0	0	0
VARS	7407	hgsc.bcm.edu	37	6	31762803	31762803	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	VARS-93	NM_006295	exon2	c.C192T	p.P64P	CCCACCGGGCCCC	.	18	8	1	0	.	5	3	2	0	0
SLC35B2	347734	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	44222996	44222996	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	SLC35B2-91	NM_178148	exon4	c.G746A	p.G249E	CTGACCCCAATGG	.	162	33	147	0	.	18	18	0	0	0
FAM46A	55603	hgsc.bcm.edu	37	6	82461742	82461742	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	FAM46A-90	NM_017633	exon2	c.C117T	p.G39G	GTCGCCGCCGCCG	.	76	6	24	0	.	0	0	0	0	0
POU3F2	5454	hgsc.bcm.edu	37	6	99283376	99283376	+	Silent	SNP	T	T	G	rs195860		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	POU3F2-90	NM_005604	exon1	c.T627G	p.G209G	GGCCGGTCTGCAC	.	16	16	0	0	T|0.089;G|0.911	0	0	0	0	0
LAMA4	3910	hgsc.bcm.edu	37	6	112460964	112460964	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	LAMA4-140	NM_001105206	exon23	c.C3100A	p.P1034T	CACATGGCACTGA	.	79	4	105	0	.	0	0	0	0	0
MAP7	9053	hgsc.bcm.edu	37	6	136682172	136682172	+	Missense_Mutation	SNP	G	G	A	rs2076190	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	MAP7-90	NM_001198609	exon12	c.C1762T	p.R588W	CCTCCCGCTCGCG	.	23	23	0	0	G|0.243;A|0.757	2	0	1	1	0
GRM1	2911	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	146678777	146678777	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	GRM1-1080	NM_000838	exon6	c.A1549G	p.S517G	AACAAGAGTGGAG	.	202	24	192	0	.	0	0	0	0	0
PRR18	285800	hgsc.bcm.edu	37	6	166720806	166720806	+	Silent	SNP	G	G	C	rs911203	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	PRR18-514	NM_175922	exon1	c.C825G	p.S275S	AGCCGCGGACTCC	.	5	5	0	0	G|0.796;C|0.204	0	0	0	0	0
USP42	84132	hgsc.bcm.edu	37	7	6193565	6193565	+	Missense_Mutation	SNP	A	A	G	rs199569334		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	USP42-659	NM_032172	exon15	c.A2380G	p.M794V	GAGGCCATGGCCG	.	20	7	0	0	A|0.998;G|0.002	1	0	1	0	0
PODXL	5420	hgsc.bcm.edu	37	7	131241030	131241035	+	In_Frame_Del	DEL	GGCGAC	GGCGAC	-	rs11277659	alternate_allele	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	GGCGAC	GGCGAC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	PODXL-136	NM_001018111	exon1	c.84_89del	p.28_30del	TGGGAGGGCGACG	.	28	5	1	0	.	0	0	0	0	0
MFHAS1	9258	hgsc.bcm.edu	37	8	8750467	8750467	+	Silent	SNP	A	A	G	rs1062988		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	MFHAS1-90	NM_004225	exon1	c.T102C	p.L34L	GGCGGTAAGCGTG	.	12	5	0	0	A|0.857;G|0.143	0	0	0	0	0
SDR16C5	195814	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	8	57221513	57221513	+	Missense_Mutation	SNP	C	C	G	rs140271354	alternate_allele	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	SDR16C5-92	NM_138969	exon4	c.G539C	p.G180A	CTTAATCCAGCTG	.	70	5	49	0	C|1.000;T|0.000	0	0	0	0	0
BHLHE22	27319	hgsc.bcm.edu	37	8	65493532	65493532	+	Missense_Mutation	SNP	T	T	A	rs62519835		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	BHLHE22-90	NM_152414	exon1	c.T185A	p.L62Q	CGCCCCTGGGCTG	.	26	10	0	0	T|0.935;A|0.065	4	1	3	0	0
E2F5	1875	hgsc.bcm.edu	37	8	86089787	86089787	+	Silent	SNP	C	C	G	rs12926	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	E2F5-415	NM_001083588	exon1	c.C132G	p.A44A	GGGCGCCGGGGGC	.	9	9	0	0	C|0.434;G|0.566	0	0	0	0	0
ESRP1	54845	bcgsc.ca	37	8	95655596	95655596	+	Silent	SNP	T	T	C	rs72676907	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ESRP1-94	NM_001122827	exon3	c.T327C	p.D109D	TACTGATGGGCAG	.	127	6	139	1	T|0.887;C|0.113	0	0	0	0	0
ZNF696	79943	hgsc.bcm.edu	37	8	144378868	144378868	+	Silent	SNP	A	A	G	rs7386259	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ZNF696-90	NM_030895	exon3	c.A1023G	p.R341R	CCAGCGACTCCAC	.	12	12	0	0	A|0.118;G|0.882	1	0	1	0	0
ZNF517	340385	hgsc.bcm.edu	37	8	146033347	146033347	+	Missense_Mutation	SNP	T	T	C	rs2976653		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	ZNF517-90	NM_213605	exon5	c.T1046C	p.V349A	GCGGCGTGGGGCA	.	16	16	0	0	G|0.992;C|0.006	3	0	3	0	0
DMRT1	1761	hgsc.bcm.edu	37	9	841971	841971	+	Missense_Mutation	SNP	T	T	A	rs3739583	byfrequency	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	DMRT1-515	NM_021951	exon1	c.T133A	p.S45T	AGCGGCTCGAGCG	.	13	7	1	0	T|0.317;A|0.683	0	0	0	0	0
OMD	4958	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	9	95179219	95179219	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	OMD-206	NM_005014	exon2	c.T622C	p.F208L	TGGCAAAGATTTT	.	69	6	62	0	.	0	0	0	0	0
GPR144	347088	hgsc.bcm.edu	37	9	127215336	127215336	+	Silent	SNP	G	G	A	rs144326848	by1000genomes	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	.	NM_001161808	exon4	c.G360A	p.L120L	CGTGCTGGTGTTC	.	17	13	1	0	G|0.997;A|0.003	0	0	0	0	0
NUP214	8021	broad.mit.edu	37	9	134074122	134074122	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	NUP214-1131	NM_005085	exon29	c.G5241T	p.Q1747H	CAGTCAGCCTGGG	.	106	3	100	1	.	13	13	0	0	0
NAP1L2	4674	broad.mit.edu	37	X	72433664	72433666	+	In_Frame_Del	DEL	TCC	TCC	-	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	NAP1L2-130	NM_021963	exon1	c.663_665del	p.221_222del	ATGTCGTCCTCCT	.	215	8	207	0	.	0	0	0	0	0
EIF3J	8669	hgsc.bcm.edu	37	15	44829394	44829395	+	In_Frame_Ins	INS	-	-	GGCGGCGGC	novel		TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	EIF3J-68	NM_003758	exon1	c.2_3insGGCGGCGGC	p.M1delinsMAAA	TCGAGATGGCGGC	.	212	27	103	1	.	0	0	0	0	0
C21orf58	54058	broad.mit.edu	37	21	47721985	47721986	+	In_Frame_Ins	INS	-	-	TGG	rs71318063	bycluster;by1000genomes	TCGA-OR-A5JO-01A-11D-A29I-10	TCGA-OR-A5JO-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	f124772a-7861-4fc1-a7cd-da437fbccf02	80f11d6b-2e96-4c29-bd49-ea8f1a398129	.	C21orf58-91	NM_058180	exon8	c.897_898insCCA	p.H299delinsHH	CACAGCATGGTGG	.	69	14	18	0	-|0.500;TGG|0.500	0	0	0	0	0
