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
DNAJC16	23341	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	15894410	15894410	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	DNAJC16-226	NM_015291	exon15	c.G2087A	p.G696D	ACACTGGTTATGT	.	123	26	162	0	.	21	8	13	0	0
BAI2	576	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	32203282	32203282	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	BAI2-526	NM_001703	exon19	c.C2847T	p.T949T	GAGCAGGGTGAGC	.	56	22	59	0	.	1	0	1	0	0
CSMD2	114784	hgsc.bcm.edu	37	1	34128679	34128679	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	CSMD2-103	NM_052896	exon26	c.G3946C	p.V1316L	CAAACACCAGGAA	.	40	2	52	0	.	0	0	0	0	0
LEPROT	54741	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	65895651	65895651	+	Silent	SNP	C	C	A	rs147651845	byfrequency;alternate_allele	TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	LEPROT-90	NM_001198681	exon4	c.C226A	p.R76R	GCCTGTCGGGAAC	.	189	17	428	2	C|1.000;T|0.000	175	175	0	0	0
ABCA4	24	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	94502837	94502837	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ABCA4-162	NM_000350	exon25	c.G3677T	p.G1226V	TCTTGACCAATGC	.	80	14	161	0	.	0	0	0	0	0
KCNA2	3737	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	111146524	111146524	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	KCNA2-91	NM_001204269	exon3	c.G881T	p.R294L	ATGACACGGAGGA	.	92	33	170	0	.	1	0	1	0	0
SPAG17	200162	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	118535132	118535132	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SPAG17-158	NM_206996	exon36	c.T5318A	p.V1773D	TTTATGACCTCAT	.	100	25	174	0	.	0	0	0	0	0
HRNR	388697	hgsc.bcm.edu	37	1	152187192	152187192	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	HRNR-93	NM_001009931	exon3	c.C6913T	p.H2305Y	ACCCATGTCGGCC	.	1346	83	1440	0	.	0	0	0	0	0
CADM3	57863	broad.mit.edu	37	1	159169659	159169659	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	CADM3-92	NM_021189	exon9	c.G1173A	p.R391R	GATCCGGCACAAA	.	44	4	35	1	.	0	0	0	0	0
FMO4	2329	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	171303684	171303684	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	FMO4-537	NM_002022	exon8	c.T962C	p.I321T	AAAACATTGATGT	.	79	31	124	0	.	8	4	4	0	0
CEP350	9857	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	180063597	180063597	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	CEP350-26	NM_014810	exon34	c.A8357T	p.Q2786L	GCAATCAGGAGCT	.	47	16	37	0	.	12	7	5	0	0
OBSCN	84033	hgsc.bcm.edu	37	1	228494611	228494611	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	OBSCN-403	NM_001271223	exon56	c.T14807C	p.V4936A	CGCCTGTGCGGTT	.	9	8	6	2	.	0	0	0	0	0
OR2M3	127062	broad.mit.edu	37	1	248367073	248367073	+	Missense_Mutation	SNP	G	G	A	rs138010167		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	OR2M3-70	NM_001004689	exon1	c.G704A	p.R235H	GTCGTCGCAAAGC	.	253	5	399	0	G|1.000;A|0.000	0	0	0	0	0
TLL2	7093	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	98136535	98136535	+	Missense_Mutation	SNP	C	C	A	rs150738442	alternate_allele	TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	TLL2-93	NM_012465	exon18	c.G2362T	p.A788S	GGCTCGCCAGGGT	.	104	33	86	0	C|1.000;T|0.000	0	0	0	0	0
GBF1	8729	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	10	104130546	104130546	+	Missense_Mutation	SNP	G	G	T	rs7894865	byfrequency;alternate_allele	TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	GBF1-91	NM_001199378	exon29	c.G3589T	p.V1197L	TTCCTTGTGGAGC	.	101	40	133	0	G|0.996;A|0.004	33	15	18	0	0
SUFU	51684	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	104353417	104353417	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SUFU-2246	NM_001178133	exon5	c.C622A	p.L208I	GAAGAGCTACACT	.	73	39	89	0	.	26	13	13	0	0
POLR2L	5441	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	840428	840428	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	POLR2L-90	NM_021128	exon2	c.C148T	p.L50L	GGGCCAGCAGCAT	.	173	48	193	0	.	311	162	149	0	0
SAAL1	113174	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	18101957	18101957	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SAAL1-90	NM_138421	exon12	c.G1414C	p.V472L	TCTGAACCTTCAA	.	68	16	102	0	.	5	2	3	0	0
ARRB1	408	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	74979954	74979954	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ARRB1-567	NM_004041	exon14	c.G1072A	p.E358K	GTTCCTCTTTGGG	.	98	33	101	1	.	7	7	0	0	0
GAB2	9846	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	77934564	77934564	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	GAB2-663	NM_080491	exon6	c.C1461T	p.D487D	AAGTGAGTCAAAG	.	229	70	270	0	.	2	2	0	0	0
CASP5	838	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	104879534	104879534	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	CASP5-661	NM_001136112	exon2	c.A220C	p.K74Q	TCTTACTTTTTAC	.	58	23	83	0	.	0	0	0	0	0
KDM5A	5927	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	404935	404935	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	KDM5A-227	NM_001042603	exon26	c.C4259G	p.P1420R	TTCCGAGGTTGTT	.	143	54	199	0	.	18	7	11	0	0
AEBP2	121536	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	19615463	19615463	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	AEBP2-23	NM_001114176	exon2	c.G691C	p.D231H	ATAATGGATGTAG	.	32	13	25	0	.	17	9	8	0	0
PFKM	5213	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	48538849	48538849	+	Silent	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	PFKM-254	NM_001166686	exon23	c.C2241A	p.A747A	TTTTGCCACTAAG	.	119	42	71	0	.	289	160	129	0	0
NCKAP1L	3071	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	54903761	54903761	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	NCKAP1L-93	NM_005337	exon7	c.T727G	p.S243A	GCTAATTCAGATA	.	150	56	142	0	.	0	0	0	0	0
RFC5	5985	broad.mit.edu	37	12	118462710	118462710	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	RFC5-227	NM_007370	exon6	c.C476A	p.S159X	ATCTGTCAAAGAT	.	57	4	98	0	.	17	17	0	0	0
DCAF4	26094	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	73412735	73412735	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	DCAF4-92	NM_001163508	exon7	c.G678A	p.K226K	CCGGAAGGTACGT	.	146	53	135	1	.	0	0	0	0	0
ATXN3	4287	hgsc.bcm.edu	37	14	92537397	92537397	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ATXN3-522	NM_001164778	exon6	c.A388G	p.T130A	CTGCTGTCTGAAA	.	29	3	14	0	.	0	0	0	0	0
RYR3	6263	broad.mit.edu	37	15	33962623	33962623	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	RYR3-520	NM_001243996	exon38	c.T5726G	p.V1909G	TAGGGGTTCCTTT	.	40	17	36	11	.	0	0	0	0	0
GDE1	51573	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	19516303	19516303	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	GDE1-70	NM_016641	exon5	c.T748G	p.F250V	TAACAAATATAAA	.	164	51	145	0	.	88	58	30	0	0
EEF2K	29904	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	22237117	22237117	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	EEF2K-856	NM_013302	exon2	c.C67T	p.H23Y	GCTGGCCATGATG	.	92	20	82	0	.	2	0	2	0	0
CX3CL1	6376	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	57413588	57413588	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	CX3CL1-226	NM_002996	exon2	c.A113G	p.K38R	GCAGCAAGATGAC	.	85	19	71	0	.	166	121	45	0	0
SLC12A4	6560	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	67981315	67981315	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SLC12A4-91	NM_001145962	exon15	c.G1997C	p.G666A	CGGATCCCGTCAC	.	34	8	37	0	.	53	32	21	0	0
NFATC3	4775	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	68224719	68224719	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	NFATC3-92	NM_173163	exon9	c.C2147A	p.P716Q	CAGTTCCATCTTT	.	171	95	206	0	.	11	3	8	0	0
CHMP1A	5119	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	89715819	89715819	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	.	NM_001083314	exon3	c.G172A	p.D58N	CGCCATCCGAAGC	.	210	63	150	0	.	89	58	31	0	0
CDK10	8558	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	89756963	89756963	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	CDK10-508	NM_052988	exon3	c.C163T	p.R55W	CCAGATCGGGCCC	.	144	28	111	0	.	1	0	1	0	0
ACAP1	9744	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	7250507	7250507	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ACAP1-153	NM_014716	exon14	c.G1289A	p.W430X	CGGAGTGGGCCAG	.	121	38	105	0	.	2	2	0	0	0
ATAD5	79915	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	29162059	29162059	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ATAD5-93	NM_024857	exon2	c.G960C	p.K320N	CTTTAAGACAGTT	.	61	22	108	0	.	0	0	0	0	0
LRRC37B	114659	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	30348539	30348539	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	LRRC37B-92	NM_052888	exon1	c.G374T	p.R125L	ACAAGCGGACTCC	.	153	49	167	0	.	1	1	0	0	0
KRTAP4-3	85290	hgsc.bcm.edu	37	17	39324228	39324228	+	Missense_Mutation	SNP	C	C	A	rs192418439		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	KRTAP4-3-22	NM_033187	exon1	c.G197T	p.R66M	GTGGTCCTGCAGC	.	29	9	19	2	C|0.876;A|0.125	0	0	0	0	0
ABI3	51225	broad.mit.edu	37	17	47299547	47299547	+	Silent	SNP	T	T	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ABI3-90	NM_016428	exon7	c.T897C	p.P299P	TGGGCCTGATGAG	.	183	4	149	0	.	24	24	0	0	0
MFSD11	79157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	74772621	74772621	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	MFSD11-91	NM_001242532	exon12	c.C1183T	p.Q395X	TTTGTTCAGGTAA	.	220	108	236	0	.	0	0	0	0	0
RPTOR	57521	hgsc.bcm.edu	37	17	78858927	78858927	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	RPTOR-847	NM_020761	exon17	c.C1962T	p.D654D	CAGCGACGGGAGC	.	12	6	5	2	.	35	11	24	0	0
SYT4	6860	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	18	40853823	40853823	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SYT4-132	NM_020783	exon2	c.G571A	p.D191N	ATGGGTCAGAGGT	.	112	46	109	0	.	0	0	0	0	0
MRPL54	116541	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	3765208	3765208	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	MRPL54-90	NM_172251	exon2	c.G163A	p.A55T	AGCGAGGCCCTCA	.	50	24	90	0	.	142	75	66	1	0
ANKLE1	126549	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	17396342	17396342	+	Silent	SNP	C	C	T	rs111432888		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	.	NM_152363	exon7	c.C1479T	p.A493A	GAGGGCCCGGCCA	.	167	54	126	1	C|0.500;T|0.500	0	0	0	0	0
ZFP14	57677	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	36831787	36831787	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ZFP14-91	NM_020917	exon5	c.G941A	p.C314Y	TCCTTACATTCAT	.	104	39	212	1	.	3	1	2	0	0
ZNF225	7768	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	44635911	44635911	+	Silent	SNP	A	A	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	.	NM_013362	exon5	c.A1144C	p.R382R	AGCTTCAGATGGG	.	101	47	113	0	.	1	0	1	0	0
ZNF547	284306	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	57888699	57888699	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ZNF547-91	NM_173631	exon4	c.G355A	p.A119T	TGTCCAGCACATC	.	91	27	97	0	.	1	0	1	0	0
ADAM17	6868	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	9630624	9630624	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ADAM17-659	NM_003183	exon19	c.G2157A	p.M719I	AGAATCCATGCTG	.	55	11	50	0	.	17	12	5	0	0
FAM49A	81553	hgsc.bcm.edu;broad.mit.edu	37	2	16736394	16736394	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	FAM49A-226	NM_030797	exon11	c.T851A	p.I284K	ACTTTTATGCAGC	.	34	7	45	0	.	0	0	0	0	0
PIGF	5281	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	2	46815297	46815297	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	PIGF-226	NM_173074	exon6	c.A568G	p.S190G	AAGTGCTACGTTT	.	46	22	53	0	.	13	1	12	0	0
TTC7A	57217	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	47300864	47300864	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	TTC7A-136	NM_020458	exon20	c.C2379T	p.G793G	GCTGGGCCACAAG	.	62	24	111	0	.	25	14	11	0	0
SPTBN1	6711	hgsc.bcm.edu	37	2	54876308	54876308	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SPTBN1-140	NM_003128	exon25	c.A5183G	p.Q1728R	TGGGACAGGACTA	.	74	4	75	0	.	169	169	0	0	0
IL1R2	7850	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	102626224	102626224	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	IL1R2-522	NM_001261419	exon3	c.G268T	p.D90Y	GCCCAGGACGGTG	.	270	85	359	1	.	0	0	0	0	0
CYBRD1	79901	broad.mit.edu	37	2	172379114	172379114	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	CYBRD1-90	NM_024843	exon1	c.G59A	p.G20D	TCGTCGGCTTCCT	.	37	4	16	0	.	15	13	2	0	0
RAPH1	65059	broad.mit.edu	37	2	204305855	204305855	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	RAPH1-1151	NM_213589	exon14	c.G2058A	p.P686P	TGTTGGCGGCTTA	.	92	5	67	0	.	0	0	0	0	0
NINL	22981	broad.mit.edu;ucsc.edu;bcgsc.ca	37	20	25457543	25457543	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	NINL-94	NM_025176	exon17	c.G2384A	p.R795H	TGGGCGCGCTTCT	.	26	4	34	0	.	18	6	12	0	0
UMODL1	89766	broad.mit.edu	37	21	43529716	43529716	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	UMODL1-93	NM_173568	exon10	c.G1564A	p.A522T	TCACCGGCTGCCT	.	89	4	115	1	.	0	0	0	0	0
ITGB2	3689	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	21	46306670	46306670	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ITGB2-717	NM_000211	exon15	c.T2228G	p.L743R	GACTTGAGCTTCT	.	43	6	73	0	.	126	126	0	0	0
NF2	4771	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	22	30038223	30038223	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	NF2-4696	NM_000268	exon4	c.C396A	p.Y132X	GATCTACTGCCCT	.	55	37	66	0	.	3	1	2	0	0
ITPR1	3708	bcgsc.ca	37	3	4685828	4685828	+	Silent	SNP	A	A	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ITPR1-710	NM_001099952	exon8	c.A534T	p.I178I	GGTCATAGGTGAC	.	24	4	19	0	.	0	0	0	0	0
STAC	6769	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	36587768	36587768	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	STAC-94	NM_003149	exon11	c.T1196G	p.L399R	ATGTACTAGAAAA	.	80	62	86	0	.	0	0	0	0	0
SETD2	29072	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	47061276	47061276	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SETD2-1273	NM_014159	exon19	c.A7405T	p.K2469X	TGCTTTTCTTTGC	.	85	72	151	1	.	11	5	6	0	0
NPRL2	10641	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	50386372	50386372	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	NPRL2-278	NM_006545	exon5	c.A518T	p.D173V	GGTACATCATACT	.	149	107	165	1	.	14	0	14	0	0
BAP1	8314	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	52441190	52441190	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	BAP1-1032	NM_004656	exon7	c.G580A	p.G194R	GCCTACCATGGTC	.	52	34	66	0	.	6	0	6	0	0
ZBTB11	27107	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	101378652	101378652	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ZBTB11-91	NM_014415	exon6	c.C2021G	p.T674R	ACACCTGTGTGCT	.	99	36	125	0	.	7	2	5	0	0
KCTD8	386617	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	4	44450342	44450342	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	KCTD8-92	NM_198353	exon1	c.G199A	p.D67N	TACTGTCCGGGAC	.	36	14	23	0	.	4	2	2	0	0
PPAT	5471	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	57262889	57262889	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	PPAT-90	NM_002703	exon10	c.C1253T	p.A418V	GGTGAAGCTACTC	.	77	30	154	1	.	8	7	1	0	0
CDC20B	166979	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	5	54429246	54429246	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	CDC20B-90	NM_001170402	exon6	c.G691T	p.D231Y	AGTAGTCATTTCG	.	99	37	139	0	.	0	0	0	0	0
OTP	23440	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	76932809	76932809	+	Missense_Mutation	SNP	G	G	C	rs148662448	byfrequency;alternate_allele	TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	OTP-69	NM_032109	exon2	c.C284G	p.A95G	TGGCCGGCTTGGC	.	152	49	141	0	G|0.995;A|0.005	0	0	0	0	0
AFF4	27125	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	132270292	132270292	+	Silent	SNP	T	T	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	AFF4-229	NM_014423	exon3	c.A465C	p.S155S	GTTATATGACTCA	.	147	65	183	0	.	25	15	10	0	0
DST	667	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	6	56480769	56480769	+	Missense_Mutation	SNP	C	C	T	rs148062292		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	DST-523	NM_001723	exon24	c.G7496A	p.R2499Q	GCCACCCGGTACT	.	114	44	141	0	C|1.000;T|0.000	0	0	0	0	0
SEPT7	989	hgsc.bcm.edu;bcgsc.ca	37	7	35930344	35930344	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	.	NM_001011553	exon10	c.A936T	p.K312N	CAGAAAACTTGCA	.	27	15	30	0	.	48	48	0	0	0
CDK13	8621	broad.mit.edu	37	7	40134552	40134552	+	Silent	SNP	A	A	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	CDK13-548	NM_003718	exon14	c.A4512G	p.R1504R	TGGCAGAGGCAGA	.	162	3	125	0	.	19	19	0	0	0
FOXP2	93986	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	114299729	114299729	+	Splice_Site	SNP	G	G	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	FOXP2-295	NM_014491	exon13	c.1647+1G>A	.	TGGAAGGTAACTA	.	58	25	96	0	.	0	0	0	0	0
NDUFB2	4708	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	140402766	140402766	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	NDUFB2-91	NM_004546	exon2	c.T199A	p.F67I	ATGTGGTTCTGGA	.	231	73	216	1	.	619	305	313	1	0
SGK223	0	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	8	8234118	8234118	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	.	NM_001080826	exon2	c.G1801T	p.G601C	CGACACCGTTGGT	.	88	23	76	0	.	6	2	4	0	0
ZNF395	55893	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	8	28209093	28209093	+	Silent	SNP	C	C	A	rs145491469	byfrequency;alternate_allele	TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ZNF395-90	NM_018660	exon7	c.G1152T	p.P384P	GGACTCCGGGCCA	.	178	62	160	1	C|1.000;T|0.000	19	11	8	0	0
ZBTB10	65986	hgsc.bcm.edu	37	8	81399527	81399527	+	Missense_Mutation	SNP	T	T	G	rs185916023		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ZBTB10-522	NM_023929	exon1	c.T482G	p.V161G	CGACTGTGGATCT	.	4	2	3	1	T|0.997;G|0.003	2	1	0	0	1
PLEC	5339	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	8	144998457	144998457	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	PLEC-141	NM_201380	exon31	c.G6051A	p.L2017L	CTCCTCCAGCCGC	.	18	8	23	0	.	11	6	5	0	0
VPS13A	23230	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	9	79955424	79955424	+	Silent	SNP	T	T	A	rs144477984	byfrequency;alternate_allele	TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	VPS13A-161	NM_001018038	exon50	c.T6984A	p.A2328A	AGTGGCTGAAGAA	.	91	42	122	0	T|1.000;C|0.000	14	7	7	0	0
MUSK	4593	broad.mit.edu	37	9	113530177	113530177	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	MUSK-1379	NM_005592	exon8	c.C998G	p.A333G	AAGATGCTCTTGT	.	137	3	115	0	.	0	0	0	0	0
SLC9A7	84679	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	X	46491075	46491075	+	Silent	SNP	A	A	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SLC9A7-132	NM_001257291	exon14	c.T1686A	p.V562V	GGGGTCAACACCA	.	48	17	26	0	.	0	0	0	0	0
HUWE1	10075	hgsc.bcm.edu;broad.mit.edu	37	X	53564649	53564649	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	HUWE1-280	NM_031407	exon78	c.G12005A	p.R4002H	TCTTGGCGGAAAT	.	36	3	23	0	.	0	0	0	0	0
POU3F4	5456	hgsc.bcm.edu	37	X	82764046	82764046	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	POU3F4-131	NM_000307	exon1	c.G714T	p.L238F	AGGCTTGCAGCTG	.	75	4	53	0	.	0	0	0	0	0
NXF3	56000	broad.mit.edu	37	X	102332664	102332664	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	NXF3-205	NM_022052	exon18	c.G1462A	p.V488M	CATTCACGATGCA	.	149	5	152	0	.	0	0	0	0	0
RERE	473	broad.mit.edu;bcgsc.ca	37	1	8425998	8425998	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	RERE-515	NM_012102	exon14	c.1321delA	p.T441fs	CGGGGGTCTTCTT	.	37	9	46	0	.	0	0	0	0	0
DNAJC16	23341	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	15894493	15894493	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	DNAJC16-226	NM_015291	exon15	c.2170delG	p.G724fs	.	.	75	17	110	0	.	0	0	0	0	0
OR51A4	401666	broad.mit.edu	37	11	4967850	4967856	+	Frame_Shift_Del	DEL	AGGGAAG	AGGGAAG	-	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	AGGGAAG	AGGGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	OR51A4-71	NM_001005329	exon1	c.475_481del	p.159_161del	AAGGGAAGGGAAG	.	351	43	318	0	.	0	0	0	0	0
OR51A2	401667	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	4976463	4976469	+	Frame_Shift_Del	DEL	AGGGAAG	AGGGAAG	-	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	AGGGAAG	AGGGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	OR51A2-68	NM_001004748	exon1	c.475_481del	p.159_161del	.	.	164	27	244	0	.	0	0	0	0	0
ZNF30	90075	broad.mit.edu;bcgsc.ca	37	19	35434608	35434608	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	ZNF30-24	NM_001099438	exon5	c.741delG	p.K247fs	TGGAAAGCTTACC	.	19	8	19	0	.	0	0	0	0	0
TMEM144	55314	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	4	159138552	159138552	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	TMEM144-90	NM_018342	exon5	c.312delA	p.L104fs	.	.	62	26	92	0	.	0	0	0	0	0
SEPT7	989	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	35930341	35930341	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	.	NM_001011553	exon10	c.933delA	p.R311fs	.	.	31	15	30	0	.	0	0	0	0	0
MCTS1	28985	hgsc.bcm.edu	37	X	119739295	119739296	+	Frame_Shift_Del	DEL	CC	CC	-	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	MCTS1-130	NM_001137554	exon2	c.48_49del	p.16_17del	.	.	127	19	163	0	.	0	0	0	0	0
STAG2	10735	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	X	123184115	123184118	+	Frame_Shift_Del	DEL	AATG	AATG	-	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	AATG	AATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	STAG2-134	NM_001042749	exon11	c.973_976del	p.325_326del	.	.	179	61	252	0	.	0	0	0	0	0
KRT18P55	284085	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	17	26604362	26604363	+	RNA	INS	-	-	A	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	.	.	.	.	.	.	.	76	35	92	0	.	0	0	0	0	0
CDC14B	8555	bcgsc.ca	37	9	99296440	99296441	+	Splice_Site	INS	-	-	TACA	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	CDC14B-228	NM_001077181	exon10	c.605-1->TGTA	.	GGTAACCTACATA	.	16	5	34	0	.	0	0	0	0	0
MCTS1	28985	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	X	119739292	119739293	+	Frame_Shift_Ins	INS	-	-	AT	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	MCTS1-130	NM_001137554	exon2	c.45_46insAT	p.C15fs	.	.	131	28	159	0	.	0	0	0	0	0
SLC4A10	57282	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	162711596	162711597	+	Missense_Mutation	DNP	CT	CT	AG	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	SLC4A10		exon6	c.T567G	p.T178K	TGGAACTGTGTTG	.	76.0	33.0	83.0	0.0	.	0	0	0	0	0
MCTS1	28985	hgsc.bcm.edu;bcgsc.ca	37	X	119739295	119739296	+	Nonsense_Mutation	DNP	CC	CC	AT	novel		TCGA-BQ-5875-01A-11D-1589-08	TCGA-BQ-5875-11A-01D-1589-08	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1f52ff0c-1578-4669-ad59-9130f5d4d0e6	f76f9283-5634-45e1-a751-f3275a7a0d7e	.	MCTS1		exon2	c.C49T	p.Q17*	TGCATCCAGTTGA	.	123.0	30.0	165.0	0.0	.	0	0	0	0	0