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
MIIP	60672	hgsc.bcm.edu	37	1	12089880	12089880	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	MIIP-91	NM_021933	exon7	c.C774T	p.T258T	CGGTACCCCCTGC	.	38	2	29	0	.	33	33	0	0	0
PHACTR4	65979	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	28800653	28800653	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	PHACTR4-90	NM_023923	exon6	c.A1441T	p.M481L	ATTGAAATGCTAA	.	214	19	211	0	.	0	0	0	0	0
FOXJ3	22887	ucsc.edu	37	1	42776742	42776742	+	Missense_Mutation	SNP	C	C	A	rs199871840		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	FOXJ3-228	NM_001198852	exon2	c.G23T	p.C8F	GATGGACAAGCCT	.	50	11	64	3	.	1	1	0	0	0
FAM151A	338094	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	55077293	55077293	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	FAM151A-90	NM_176782	exon6	c.T926G	p.F309C	TGCTTGAACTGTG	.	157	9	137	0	.	0	0	0	0	0
SSX2IP	117178	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	85121610	85121610	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	SSX2IP-92	NM_001166293	exon11	c.C1294T	p.L432F	CTTTGAGACGTTC	.	82	6	81	0	.	13	13	0	0	0
TXNIP	10628	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	145439917	145439917	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	TXNIP-92	NM_006472	exon3	c.G463A	p.D155N	ACCCCTGATTTAA	.	171	19	206	0	.	6	4	2	0	0
PYHIN1	149628	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	158912063	158912063	+	Silent	SNP	T	T	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	PYHIN1-94	NM_152501	exon5	c.T876G	p.A292A	TGAAGCTGGTCCT	.	72	8	78	0	.	5	5	0	0	0
CACNA1S	779	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	201017795	201017795	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	CACNA1S-94	NM_000069	exon36	c.C4356A	p.N1452K	GGGCATGTTCATG	.	83	7	46	2	.	2	2	0	0	0
OBSCN	84033	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	1	228491399	228491399	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	OBSCN-403	NM_001271223	exon52	c.G13762A	p.D4588N	ATAGAAGATGTGA	.	117	14	90	0	.	1	1	0	0	0
ZP4	57829	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	238053765	238053765	+	Silent	SNP	A	A	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	ZP4-93	NM_021186	exon1	c.T171A	p.A57A	ACCCCAAGCTATT	.	89	9	61	0	.	0	0	0	0	0
OR2T12	127064	broad.mit.edu	37	1	248458256	248458256	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	OR2T12-71	NM_001004692	exon1	c.T625C	p.F209L	GGGAAAAGGGGAC	.	111	3	119	0	.	0	0	0	0	0
OR2T12	127064	hgsc.bcm.edu	37	1	248458380	248458380	+	Silent	SNP	G	G	A	rs144239623		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	OR2T12-71	NM_001004692	exon1	c.C501T	p.C167C	TGCACCGCAATAT	.	154	8	134	1	G|1.000;A|0.000	0	0	0	0	0
BMS1	9790	hgsc.bcm.edu	37	10	43312105	43312105	+	Silent	SNP	A	A	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	BMS1-93	NM_014753	exon14	c.A2388G	p.S796S	AAAATCAGGCCCC	.	77	4	59	0	.	10	10	0	0	0
AGAP7	653268	hgsc.bcm.edu;broad.mit.edu	37	10	51465326	51465326	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	.	NM_001077685	exon7	c.A1130C	p.K377T	TGTTTCTTTTTAT	.	250	14	247	0	.	37	37	0	0	0
KIAA1279	26128	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	10	70775391	70775391	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	KIAA1279-91	NM_015634	exon7	c.C1085T	p.A362V	AAAAAGCTGTGCA	.	133	10	132	1	.	22	22	0	0	0
ZCCHC24	219654	ucsc.edu	37	10	81146146	81146146	+	Silent	SNP	G	G	A	rs145739202		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	ZCCHC24-153	NM_153367	exon4	c.C681T	p.C227C	CTTCTCGCAGAGG	.	41	4	32	0	G|1.000;A|0.000	2	2	0	0	0
MUC2	4583	hgsc.bcm.edu	37	11	1092643	1092643	+	Missense_Mutation	SNP	A	A	C	rs149562922		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	MUC2-90	NM_002457	exon30	c.A4462C	p.T1488P	CCTCCAACAACCA	.	18	5	1	1	.	0	0	0	0	0
MUC2	4583	hgsc.bcm.edu	37	11	1092795	1092795	+	Silent	SNP	T	T	A	rs12786761		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	MUC2-90	NM_002457	exon30	c.T4614A	p.T1538T	CACCACTCCCATC	.	19	9	1	0	.	0	0	0	0	0
MUC2	4583	hgsc.bcm.edu	37	11	1092813	1092813	+	Silent	SNP	C	C	T	rs12577898		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	MUC2-90	NM_002457	exon30	c.C4632T	p.T1544T	CACCACCACGGTG	.	49	7	0	0	.	0	0	0	0	0
MUC2	4583	hgsc.bcm.edu	37	11	1092909	1092909	+	Silent	SNP	C	C	T	rs111487794		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	MUC2-90	NM_002457	exon30	c.C4728T	p.T1576T	ACCCACCGGCACA	.	143	13	0	0	C|0.500;T|0.500	0	0	0	0	0
MUC2	4583	hgsc.bcm.edu	37	11	1093091	1093091	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	MUC2-90	NM_002457	exon30	c.C4910T	p.T1637M	CCACTACGGTGAC	.	76	7	2	0	.	0	0	0	0	0
MUC2	4583	hgsc.bcm.edu	37	11	1093116	1093116	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	MUC2-90	NM_002457	exon30	c.C4935T	p.T1645T	ACCCACCGGCACA	.	85	11	2	1	.	0	0	0	0	0
MUC2	4583	hgsc.bcm.edu	37	11	1093135	1093135	+	Missense_Mutation	SNP	A	A	C	rs56080332		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	MUC2-90	NM_002457	exon30	c.A4954C	p.T1652P	CCAACCACGACAC	.	86	19	3	1	.	0	0	0	0	0
PTPRJ	5795	hgsc.bcm.edu;broad.mit.edu	37	11	48152110	48152110	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	PTPRJ-541	NM_001098503	exon8	c.T1457C	p.I486T	TGCATATCACACA	.	53	6	50	1	.	24	22	2	0	0
KAT5	10524	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	65480307	65480307	+	Splice_Site	SNP	T	T	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	KAT5-90	NM_001206833	exon2	c.247+2T>A	.	TGACTGTGAGTTC	.	117	8	83	0	.	0	0	0	0	0
NDUFV1	4723	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	67379406	67379406	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	NDUFV1-91	NM_007103	exon8	c.C1119A	p.F373L	TGAGTTCTATAAG	.	124	12	96	0	.	287	260	26	1	0
HYLS1	219844	hgsc.bcm.edu	37	11	125769383	125769383	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	HYLS1-91	NM_001134793	exon3	c.G120T	p.R40S	TGTCAGGAGAGAA	.	81	5	57	0	.	4	2	2	0	0
PEX5	5830	bcgsc.ca	37	12	7362624	7362624	+	Silent	SNP	T	T	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	PEX5-91	NM_001131023	exon16	c.T1770G	p.A590A	GGAGGCTGTGGAG	.	51	5	42	0	.	0	0	0	0	0
SLC26A10	65012	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	58016635	58016635	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	SLC26A10-531	NM_133489	exon6	c.T857C	p.I286T	TGCCCATTGCACT	.	114	15	88	0	.	0	0	0	0	0
YEATS4	8089	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	69759615	69759615	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	YEATS4-226	NM_006530	exon4	c.A284C	p.E95A	GGGGTGAATTCGA	.	190	33	173	1	.	9	8	1	0	0
KCNC2	3747	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	12	75436984	75436984	+	Silent	SNP	G	G	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	KCNC2-224	NM_139137	exon5	c.C1818A	p.G606G	TGCCAAGCCCGCT	.	97	7	86	1	.	0	0	0	0	0
UBE3B	89910	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	109939240	109939240	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	UBE3B-660	NM_130466	exon13	c.C1183T	p.R395W	CTGATCCGGATCT	.	218	33	158	1	.	0	0	0	0	0
ZMYM5	9205	hgsc.bcm.edu;ucsc.edu	37	13	20398872	20398872	+	Silent	SNP	T	T	C	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	ZMYM5-90	NM_001142684	exon8	c.A1755G	p.K585K	AGAATCTTTTGAG	.	35	4	22	0	.	3	3	0	0	0
TNFRSF19	55504	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	13	24243093	24243093	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	TNFRSF19-228	NM_018647	exon9	c.A1102C	p.N368H	TCTGAAAACTTTA	.	160	14	169	0	.	5	5	0	0	0
CKAP2	26586	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	13	53042426	53042426	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	CKAP2-92	NM_001098525	exon7	c.T1493A	p.M498K	AAGAGATGCGACA	.	44	4	57	0	.	8	8	0	0	0
AP1G2	8906	ucsc.edu	37	14	24032631	24032631	+	Silent	SNP	A	A	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	AP1G2-45	NM_003917	exon14	c.T1368A	p.S456S	GCGCACAGAGTAG	.	24	1	17	0	.	47	42	5	0	0
CLEC14A	161198	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	38723829	38723829	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	CLEC14A-94	NM_175060	exon1	c.G1399A	p.G467R	AGTCCCCGACTTT	.	160	22	167	0	.	79	79	0	0	0
EXOC3L4	91828	hgsc.bcm.edu	37	14	103569064	103569064	+	Missense_Mutation	SNP	A	A	G	rs200540457		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	EXOC3L4-23	NM_001077594	exon2	c.A1004G	p.E335G	GCTGCGAGCAGCT	.	5	4	7	1	.	2	0	2	0	0
NPAP1	23742	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	15	24923231	24923231	+	Silent	SNP	T	T	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	.	NM_018958	exon1	c.T2217A	p.T739T	CAACACTGCCTCA	.	231	22	239	0	.	0	0	0	0	0
HERC2	8924	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	28510872	28510872	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	HERC2-234	NM_004667	exon14	c.A1762T	p.S588C	CCTCACTGGAGCC	.	84	10	73	0	.	0	0	0	0	0
TMEM62	80021	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	43426530	43426530	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	TMEM62-136	NM_024956	exon2	c.A256G	p.I86V	GAAACTATTGACA	.	83	10	84	0	.	3	3	0	0	0
FES	2242	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	15	91438758	91438758	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	FES-546	NM_002005	exon19	c.G2439T	p.E813D	CCAGGAGCTGCAG	.	108	8	121	0	.	192	182	10	0	0
DECR2	26063	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	16	457438	457438	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	DECR2-90	NM_020664	exon4	c.T215G	p.L72R	GGAAGCTGGCTGG	.	109	9	70	0	.	2	2	0	0	0
PIGQ	9091	hgsc.bcm.edu	37	16	624548	624548	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	PIGQ-226	NM_148920	exon2	c.C474T	p.S158S	TGCCAGCACGGGG	.	29	23	14	2	.	19	9	10	0	0
TSC2	7249	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	2126139	2126139	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	TSC2-1908	NM_001114382	exon24	c.T2710C	p.F904L	CTGCCCTTCCGGA	.	104	13	64	0	.	9	8	1	0	0
PRPF8	10594	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	17	1564455	1564455	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	PRPF8-525	NM_006445	exon28	c.T4340A	p.V1447D	TTCAAAACCTAGA	.	79	9	66	0	.	0	0	0	0	0
NEURL4	84461	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	7220554	7220554	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	NEURL4-46	NM_032442	exon28	c.C4454T	p.A1485V	GCCCCAGCATATT	.	50	5	54	0	.	27	27	0	0	0
SCRN2	90507	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	45915217	45915217	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	SCRN2-91	NM_138355	exon8	c.A1271G	p.Y424C	TACGCATAAGCCT	.	45	8	47	0	.	36	31	5	0	0
TEX2	55852	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	17	62290509	62290509	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	TEX2-91	NM_018469	exon2	c.G1069A	p.G357S	CGTAGCCATCCCC	.	115	12	93	0	.	4	4	0	0	0
DOT1L	84444	hgsc.bcm.edu	37	19	2226655	2226655	+	Missense_Mutation	SNP	C	C	A	rs113164803		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	DOT1L-132	NM_032482	exon27	c.C4135A	p.L1379M	GCTGGGCTGAAGG	.	13	6	4	1	C|0.992;A|0.008	12	5	7	0	0
ARHGEF18	23370	hgsc.bcm.edu	37	19	7533867	7533867	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	ARHGEF18-228	NM_001130955	exon17	c.G3073A	p.D1025N	AAGAGCGATGTGC	.	16	6	7	2	.	24	10	14	0	0
MYO1F	4542	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	19	8604865	8604865	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	MYO1F-93	NM_012335	exon16	c.A1658C	p.K553T	CGCCCCTTCTTGT	.	87	6	80	0	.	32	32	0	0	0
DOCK6	57572	hgsc.bcm.edu	37	19	11312613	11312613	+	Silent	SNP	G	G	A	rs200959822		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	DOCK6-93	NM_020812	exon44	c.C5640T	p.H1880H	GAAGGCGTGGTCG	.	14	10	7	2	G|0.996;A|0.004	53	22	31	0	0
PSG9	5678	broad.mit.edu	37	19	43773527	43773527	+	Silent	SNP	C	C	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	PSG9-92	NM_002784	exon1	c.G57T	p.L19L	TGTGAGCAGGAGC	.	191	4	184	0	.	0	0	0	0	0
PHLDB3	653583	hgsc.bcm.edu	37	19	43983649	43983649	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	PHLDB3-68	NM_198850	exon14	c.G1582C	p.V528L	CCTGCACATGTGG	.	4	3	2	1	.	6	3	3	0	0
CRIM1	51232	hgsc.bcm.edu;bcgsc.ca	37	2	36583678	36583678	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	CRIM1-118	NM_016441	exon1	c.C243G	p.Y81X	GATTTACGGAACC	.	72	8	68	0	.	44	44	0	0	0
SRBD1	55133	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	45647009	45647009	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	SRBD1-90	NM_018079	exon17	c.A2074G	p.K692E	TTGCCTTGAGTAA	.	170	19	111	0	.	6	6	0	0	0
EIF5B	9669	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	99978207	99978207	+	Silent	SNP	A	A	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	EIF5B-93	NM_015904	exon4	c.A843T	p.V281V	AACTGTAAAATCC	.	187	15	185	0	.	138	101	37	0	0
SLC20A1	6574	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	113404533	113404533	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	SLC20A1-92	NM_005415	exon2	c.A128T	p.D43V	CCAATGATGTAGC	.	97	10	96	0	.	6	6	0	0	0
SLC20A1	6574	hgsc.bcm.edu;broad.mit.edu	37	2	113404573	113404573	+	Silent	SNP	A	A	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	SLC20A1-92	NM_005415	exon2	c.A168G	p.V56V	AGGTGTAGTGACC	.	77	5	88	0	.	4	4	0	0	0
ERCC3	2071	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	128050232	128050232	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	ERCC3-723	NM_000122	exon3	c.A425T	p.K142M	CTGAGCTTCCTGA	.	116	12	110	0	.	10	10	0	0	0
UGT1A1	54658	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	2	234669022	234669022	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	UGT1A1-24	NM_000463	exon1	c.T89C	p.I30T	GGAAGATACTGTT	.	52	5	44	1	.	0	0	0	0	0
IL5RA	3568	hgsc.bcm.edu;broad.mit.edu	37	3	3143448	3143448	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	IL5RA-91	NM_001243099	exon5	c.C295T	p.R99W	TGGTCCGCACACT	.	79	4	79	0	.	1	1	0	0	0
FILIP1L	11259	broad.mit.edu	37	3	99648841	99648841	+	Silent	SNP	A	A	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	FILIP1L-45	NM_182909	exon3	c.T285C	p.A95A	TTTTTCAGCCTTT	.	159	4	165	0	.	0	0	0	0	0
PLCXD2	257068	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	111432757	111432757	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	PLCXD2-227	NM_001185106	exon3	c.C648T	p.P216P	CTGTCCCTTCTAC	.	111	13	142	0	.	0	0	0	0	0
DRD5	1816	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	4	9784079	9784079	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	DRD5-91	NM_000798	exon1	c.C426G	p.I142M	GGCCATCTCCAGG	.	57	5	45	1	.	0	0	0	0	0
NOA1	84273	broad.mit.edu;bcgsc.ca	37	4	57842784	57842784	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	.	NM_032313	exon1	c.G968T	p.G323V	TCCACTCCATAGC	.	144	8	106	0	.	13	12	1	0	0
OTUD4	54726	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	4	146076795	146076795	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	OTUD4-565	NM_001102653	exon9	c.G539T	p.R180I	ACCTTTCTAGACA	.	176	11	212	0	.	4	4	0	0	0
CCT5	22948	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	10261751	10261751	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	CCT5-92	NM_012073	exon8	c.T1073G	p.L358R	CTGGTCTTGTACA	.	375	36	330	1	.	180	170	10	0	0
GPR98	84059	hgsc.bcm.edu;broad.mit.edu	37	5	90052965	90052965	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	GPR98-103	NM_032119	exon57	c.T11927A	p.F3976Y	TTGAATTTGCAGA	.	51	4	60	0	.	0	0	0	0	0
KIF20A	10112	bcgsc.ca	37	5	137518908	137518908	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	KIF20A-90	NM_005733	exon8	c.G883T	p.A295S	GTCCCGGCAAACA	.	95	5	111	0	.	3	3	0	0	0
ARAP3	64411	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	141033934	141033934	+	Silent	SNP	T	T	C	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	ARAP3-291	NM_022481	exon33	c.A4218G	p.P1406P	ATACACTGGCTCC	.	144	15	128	0	.	23	18	5	0	0
FBXO38	81545	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	147781650	147781650	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	FBXO38-231	NM_001271723	exon4	c.A368G	p.H123R	GGGGCCATGAGGC	.	143	19	147	0	.	2	2	0	0	0
RFX6	222546	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	6	117241541	117241541	+	Silent	SNP	T	T	C	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	RFX6-93	NM_173560	exon12	c.T1251C	p.D417D	GGTTGATTTGAAC	.	264	22	236	0	.	0	0	0	0	0
MAD1L1	8379	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	1855740	1855740	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	MAD1L1-1083	NM_003550	exon19	c.C2123T	p.T708I	TCGAGGGTGAGCG	.	81	15	47	0	.	99	74	24	0	1
GLI3	2737	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	42004728	42004728	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	GLI3-1149	NM_000168	exon15	c.C3943A	p.Q1315K	GGTCCTGGTTCTG	.	89	5	69	0	.	2	2	0	0	0
TYW1B	441250	broad.mit.edu	37	7	72209576	72209576	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	.	.	.	.	.	GAGCATCGACTAT	.	92	4	110	1	.	1	0	1	0	0
CALCR	799	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	93055856	93055856	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	CALCR-664	NM_001164737	exon16	c.T1339C	p.W447R	GGTTCCACTGAAT	.	142	15	154	0	.	0	0	0	0	0
EPHB6	2051	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	142562311	142562311	+	Silent	SNP	G	G	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	EPHB6-1489	NM_004445	exon7	c.G753T	p.G251G	GGCTGGGGGGGCC	.	233	37	212	0	.	4	4	0	0	0
FBXO16	157574	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	8	28321296	28321296	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	FBXO16-227	NM_172366	exon4	c.A175C	p.T59P	GGCCTGTGAGGAT	.	91	9	75	1	.	4	4	0	0	0
PDP1	54704	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	8	94935503	94935503	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	PDP1-229	NM_001161780	exon3	c.T1291A	p.L431I	CACCGATTAAGGC	.	171	13	144	0	.	2	2	0	0	0
NFIB	4781	hgsc.bcm.edu;broad.mit.edu	37	9	14307404	14307404	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	NFIB-226	NM_001190738	exon2	c.T224A	p.M75K	TTTGACATTCGCT	.	96	8	81	1	.	5	3	2	0	0
GAPVD1	26130	broad.mit.edu;bcgsc.ca	37	9	128117986	128117986	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	GAPVD1-93	NM_015635	exon24	c.T3902A	p.L1301H	AGTTTCTTTATGG	.	65	7	65	0	.	9	8	1	0	0
RPL7A	6130	ucsc.edu	37	9	136216909	136216909	+	Splice_Site	SNP	T	T	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	RPL7A-90	NM_000972	exon4	c.415+2T>A	.	AGCAGGTGAGTAG	.	80	2	95	1	.	1	1	0	0	0
TIMM17B	10245	hgsc.bcm.edu	37	X	48751202	48751202	+	Silent	SNP	T	T	C	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	TIMM17B-131	NM_001167947	exon7	c.A561G	p.T187T	CTGGGCTGTGTAG	.	32	2	24	0	.	135	134	0	1	0
GPRASP1	9737	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	X	101910683	101910683	+	Silent	SNP	G	G	C	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	GPRASP1-131	NM_001099411	exon3	c.G1842C	p.G614G	TATTGGGTCCTGG	.	160	24	145	0	.	3	3	0	0	0
F8	2157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	X	154157883	154157883	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	F8-182	NM_000132	exon14	c.G4182A	p.T1394T	ACTCCTCGTAAGG	.	137	25	175	0	.	0	0	0	0	0
INSRR	3645	broad.mit.edu	37	1	156816378	156816378	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	INSRR-1403	NM_014215	exon8	c.1743delC	p.T581fs	CTCAGTGGTTAGC	.	68	6	48	0	.	0	0	0	0	0
OR2L8	391190	hgsc.bcm.edu	37	1	248112762	248112763	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	OR2L8-70	NM_001001963	exon1	c.603_604del	p.201_202del	.	.	64	17	62	0	.	0	0	0	0	0
SCAF11	9169	broad.mit.edu	37	12	46320707	46320708	+	Frame_Shift_Del	DEL	TC	TC	-	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	SCAF11-93	NM_004719	exon11	c.2776_2777del	p.926_926del	CTCCTTTCTCTCT	.	295	8	332	0	.	0	0	0	0	0
MYH10	4628	broad.mit.edu	37	17	8452026	8452026	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	MYH10-92	NM_001256012	exon10	c.999delA	p.K333fs	ATTATCTTTGTCT	.	204	19	189	0	.	0	0	0	0	0
PRPSAP1	5635	broad.mit.edu	37	17	74307703	74307703	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	PRPSAP1-116	NM_002766	exon10	c.1078delA	p.I360fs	AAAGAATCAAACT	.	93	10	51	0	.	0	0	0	0	0
LYAR	55646	broad.mit.edu;bcgsc.ca	37	4	4276371	4276375	+	Frame_Shift_Del	DEL	CTTCA	CTTCA	-	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	CTTCA	CTTCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	LYAR-90	NM_017816	exon7	c.551_555del	p.184_185del	ATTCTTCTTCACC	.	168	13	195	0	.	0	0	0	0	0
SNX30	401548	broad.mit.edu	37	9	115567070	115567071	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	SNX30-68	NM_001012994	exon2	c.171_172insA	p.P57fs	TTTGCCCAACGGT	.	248	24	234	0	.	0	0	0	0	0
STAM	8027	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	10	17735224	17735225	+	Missense_Mutation	DNP	GC	GC	AA	novel		TCGA-BQ-5889-01A-11D-1589-08	TCGA-BQ-5889-11A-01D-1589-08	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	46b1253a-f381-46d3-ad7d-e0ed2bda9eff	fc277028-a6e0-4459-8608-40506e4c36cb	.	STAM		exon6	c.C449A	p.A150K	AGGCTGCAGAACA	.	122.0	10.0	154.0	0.0	.	0	0	0	0	0
