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
SKI	6497	hgsc.bcm.edu	37	1	2160390	2160390	+	Missense_Mutation	SNP	C	C	G	rs28384811		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	SKI-838	NM_003036	exon1	c.C185G	p.A62G	TGCCGGCGCCGGT	.	5	4	1	1	C|0.953;G|0.047	0	0	0	0	0
BAI2	576	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	32207416	32207416	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	BAI2-526	NM_001703	exon9	c.G1570T	p.E524X	TCTTCTCACTACA	.	110	17	109	0	.	0	0	0	0	0
BAI2	576	broad.mit.edu	37	1	32221746	32221746	+	Missense_Mutation	SNP	G	G	C	rs149675901	alternate_allele	TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	BAI2-526	NM_001703	exon4	c.C692G	p.A231G	GAGCCGGCCCCCG	.	58	17	62	15	G|1.000;A|0.000	2	2	0	0	0
TOE1	114034	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	45808095	45808095	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	TOE1-90	NM_025077	exon6	c.C532G	p.L178V	CTATTCCTGGAGC	.	168	29	168	0	.	11	9	2	0	0
CCDC17	149483	broad.mit.edu	37	1	46086774	46086774	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	CCDC17-23	NM_001114938	exon11	c.C1400A	p.S467X	GATGATGAGGGTG	.	38	5	38	0	.	0	0	0	0	0
LPHN2	23266	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	82456455	82456455	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	LPHN2-525	NM_012302	exon20	c.C3838G	p.L1280V	TCCCTTCTGTACC	.	165	44	142	0	.	73	34	39	0	0
C1orf51	148523	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	150259000	150259000	+	Silent	SNP	T	T	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	C1orf51-90	NM_144697	exon5	c.T792A	p.T264T	CACCACTCCAATT	.	183	35	161	0	.	20	15	5	0	0
CRTC2	200186	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	153924520	153924520	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	CRTC2-228	NM_181715	exon10	c.G971T	p.G324V	CCCAGGCCCATGC	.	108	14	95	0	.	25	15	10	0	0
C1orf111	284680	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	162344114	162344114	+	Silent	SNP	T	T	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	C1orf111-69	NM_182581	exon3	c.A510G	p.L170L	AGCCATTAGGATG	.	317	53	339	1	.	0	0	0	0	0
IVNS1ABP	10625	hgsc.bcm.edu	37	1	185278246	185278246	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	IVNS1ABP-94	NM_006469	exon4	c.T170C	p.L57S	TCAAATAAATAGG	.	34	2	37	0	.	45	45	0	0	0
FAM5C	339479	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	190067269	190067269	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	FAM5C-228	NM_199051	exon8	c.T2180A	p.L727X	CGAAGCAAGCAAG	.	129	14	146	0	.	0	0	0	0	0
PTPRC	5788	hgsc.bcm.edu;broad.mit.edu	37	1	198704382	198704382	+	Splice_Site	SNP	G	G	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	PTPRC-295	NM_080921	exon20	c.1920+1G>A	.	GTAAATGTGAGTT	.	35	4	37	0	.	0	0	0	0	0
URB2	9816	broad.mit.edu	37	1	229771589	229771589	+	Missense_Mutation	SNP	G	G	A	rs139241970		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	URB2-174	NM_014777	exon4	c.G1229A	p.R410H	GGTTCCGCTGTCT	.	98	4	100	0	G|1.000;A|0.000	2	2	0	0	0
HTRA1	5654	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	124273843	124273843	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	HTRA1-90	NM_002775	exon9	c.A1411T	p.I471F	ATCATGATCACAG	.	99	20	100	0	.	238	161	77	0	0
FAR1	84188	hgsc.bcm.edu	37	11	13743391	13743391	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	FAR1-92	NM_032228	exon10	c.C1242G	p.N414K	ACTAAACCCTGAA	.	36	2	41	0	.	11	11	0	0	0
SCARNA12	677777	ucsc.edu;bcgsc.ca	37	12	7076752	7076752	+	RNA	SNP	C	C	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	.	.	.	.	.	ATTCGCCTTAGTC	.	87	15	87	0	.	0	0	0	0	0
CNTN1	1272	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	41327590	41327590	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	CNTN1-1149	NM_001256063	exon9	c.A895C	p.N299H	ATCTTCAATATTC	.	76	14	84	0	.	1	1	0	0	0
PDZRN4	29951	hgsc.bcm.edu	37	12	41582619	41582619	+	Missense_Mutation	SNP	G	G	A	rs74955204		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	PDZRN4-296	NM_001164595	exon1	c.G362A	p.G121E	CTTCGGGGCTGGG	.	9	4	1	1	G|0.950;A|0.050	0	0	0	0	0
PLEKHA8P1	51054	broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	45567881	45567881	+	RNA	SNP	G	G	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	PLEKHA8P1-226	.	.	.	.	GAATTGGTATAAT	.	90	21	107	0	.	4	3	1	0	0
KRT77	374454	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	53097170	53097170	+	Silent	SNP	G	G	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	KRT77-187	NM_175078	exon1	c.C49A	p.R17R	AAACCCGCCTGCT	.	70	19	78	0	.	0	0	0	0	0
STAT6	6778	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	57499083	57499083	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	STAT6-849	NM_001178079	exon9	c.G852T	p.K284N	CTGAGTCTTCAGT	.	105	18	99	1	.	91	59	32	0	0
GCN1L1	10985	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	12	120599294	120599294	+	Silent	SNP	C	C	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	GCN1L1-94	NM_006836	exon22	c.G2436A	p.E812E	ACTCACCTCCTTC	.	119	10	120	0	.	0	0	0	0	0
MYO16	23026	hgsc.bcm.edu	37	13	109793009	109793009	+	Silent	SNP	C	C	T	rs141423536		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	MYO16-142	NM_001198950	exon32	c.C4449T	p.H1483H	GCTCCACCGCGCG	.	6	4	3	1	C|0.974;T|0.026	0	0	0	0	0
NFKBIA	4792	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	35871629	35871629	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	NFKBIA-721	NM_020529	exon5	c.T877A	p.S293T	ACTCTGACTCTGT	.	145	24	144	0	.	130	87	43	0	0
SLC39A9	55334	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	69866098	69866098	+	Silent	SNP	C	C	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	SLC39A9-90	NM_001252150	exon1	c.C12T	p.F4F	TGATTTCATCTCC	.	47	13	39	0	.	35	20	15	0	0
ATP10A	57194	broad.mit.edu	37	15	25953155	25953155	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	ATP10A-139	NM_024490	exon12	c.C2543T	p.A848V	CGAATGGCAGACT	.	50	3	66	0	.	2	2	0	0	0
SLC28A2	9153	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	45561728	45561728	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	SLC28A2-94	NM_004212	exon14	c.A1561C	p.I521L	CAGTGGATTTCTG	.	37	6	38	0	.	0	0	0	0	0
MTFMT	123263	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	65295424	65295424	+	Silent	SNP	A	A	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	MTFMT-24	NM_139242	exon9	c.T1146G	p.V382V	CATAGCAACAGTT	.	56	9	38	0	.	14	9	5	0	0
C15orf27	123591	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	15	76484312	76484312	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	C15orf27-90	NM_152335	exon9	c.G772A	p.E258K	CAGTTTGAGATCC	.	49	9	43	0	.	0	0	0	0	0
ANPEP	290	broad.mit.edu	37	15	90349269	90349269	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	ANPEP-94	NM_001150	exon2	c.C546G	p.F182L	CCCCTCGAACTCG	.	153	5	130	0	.	465	439	25	0	0
CIITA	4261	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	10992818	10992818	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	CIITA-226	NM_000246	exon5	c.T395C	p.M132T	AGAGTATGGAGAT	.	137	15	141	0	.	11	11	0	0	0
ABCC11	85320	hgsc.bcm.edu;broad.mit.edu	37	16	48230229	48230229	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	ABCC11-95	NM_033151	exon17	c.C2318T	p.P773L	TGCTCCGGCACTG	.	52	3	39	0	.	0	0	0	0	0
IST1	9798	hgsc.bcm.edu;ucsc.edu	37	16	71956520	71956520	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	.	NM_001270976	exon8	c.G735T	p.M245I	GCCCATGCCCATG	.	84	13	49	0	.	53	13	40	0	0
GAN	8139	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	81411103	81411103	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	GAN-92	NM_022041	exon11	c.C1696T	p.R566C	GACCTTCGCCGTA	.	359	54	261	0	.	2	2	0	0	0
HSDL1	83693	hgsc.bcm.edu;broad.mit.edu	37	16	84158328	84158328	+	Silent	SNP	A	A	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	HSDL1-90	NM_031463	exon6	c.T900G	p.L300L	TGCAAAAAGAAAC	.	63	11	57	0	.	1	1	0	0	0
NLE1	54475	broad.mit.edu	37	17	33464163	33464163	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	NLE1-290	NM_018096	exon7	c.C685T	p.R229W	AGATCCGCACACT	.	57	3	63	0	.	9	9	0	0	0
KRT9	3857	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	39726126	39726126	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	KRT9-92	NM_000226	exon3	c.G867T	p.K289N	ATTCTTCTTGAGG	.	277	60	264	0	.	0	0	0	0	0
CDC27	996	hgsc.bcm.edu	37	17	45234298	45234298	+	Missense_Mutation	SNP	G	G	A	rs62077263	alternate_allele	TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	CDC27-291	NM_001114091	exon7	c.C823T	p.L275F	GACTAAGAGCTGC	.	55	3	59	0	G|0.333;C|0.667	10	10	0	0	0
PPM1D	8493	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	58740446	58740446	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	PPM1D-227	NM_003620	exon6	c.G1351T	p.E451X	TTTTTAGAGGTTT	.	142	42	101	0	.	46	11	35	0	0
ABCA8	10351	hgsc.bcm.edu;bcgsc.ca	37	17	66928478	66928478	+	Missense_Mutation	SNP	T	T	C	rs149928780		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	ABCA8-93	NM_007168	exon6	c.A748G	p.R250G	TCATCCTTTTCCT	.	76	5	47	0	T|1.000;C|0.000	1	1	0	0	0
ABCA5	23461	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	67304486	67304486	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	ABCA5-93	NM_018672	exon4	c.G493C	p.A165P	GAGCAGCCTCACA	.	174	23	170	0	.	1	0	1	0	0
CCDC57	284001	hgsc.bcm.edu	37	17	80115741	80115741	+	Silent	SNP	C	C	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	CCDC57-24	NM_198082	exon14	c.G2124A	p.E708E	CCGCAGCTCCAAA	.	18	6	7	1	.	4	0	4	0	0
PTPRS	5802	broad.mit.edu;bcgsc.ca	37	19	5231542	5231542	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	PTPRS-357	NM_002850	exon14	c.A1934T	p.E645V	TGCGTTTCCGGCG	.	33	7	38	0	.	6	4	2	0	0
ZNF681	148213	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	23926507	23926507	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	.	NM_138286	exon4	c.G1845C	p.E615D	GAGTTTCTCACCA	.	27	4	16	0	.	8	8	0	0	0
SUPT5H	6829	hgsc.bcm.edu	37	19	39960028	39960028	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	SUPT5H-94	NM_003169	exon15	c.A1364G	p.E455G	AGCATGAGGACCT	.	54	3	55	0	.	0	0	0	0	0
POU2F2	5452	hgsc.bcm.edu	37	19	42599440	42599440	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	POU2F2-227	NM_001207025	exon11	c.A1129G	p.M377V	GTACCATATGGGG	.	33	2	20	0	.	0	0	0	0	0
TAF1B	9014	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	10016047	10016047	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	TAF1B-92	NM_005680	exon7	c.G607C	p.E203Q	CGAAAGGAGAAGG	.	200	40	210	0	.	36	19	17	0	0
CAD	790	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	27460276	27460276	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	CAD-295	NM_004341	exon28	c.G4426A	p.E1476K	CTGCGGGAACCAG	.	120	20	119	0	.	19	11	8	0	0
TSGA10	80705	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	99720473	99720473	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	TSGA10-91	NM_182911	exon9	c.G568T	p.E190X	CACTTTCGGTATC	.	113	12	86	0	.	2	1	1	0	0
DARS	1615	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	2	136736937	136736937	+	Splice_Site	SNP	C	C	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	DARS-91	NM_001349	exon4	c.125-1G>T	.	CTCGATCTGTAAT	.	124	25	93	0	.	0	0	0	0	0
THSD7B	80731	broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	138169186	138169186	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	THSD7B-75	.	.	.	.	GAAAAGCAGAAAG	.	108	15	91	0	.	0	0	0	0	0
KIF5C	3800	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	149835496	149835496	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	KIF5C-69	NM_004522	exon13	c.C1354T	p.Q452X	TTGGATCAGGATG	.	61	17	44	0	.	0	0	0	0	0
TTN	7273	bcgsc.ca	37	2	179449124	179449124	+	Silent	SNP	T	T	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	TTN-636	NM_001267550	exon311	c.A65154G	p.E21718E	AGGATATTCAGTT	.	143	5	113	0	.	0	0	0	0	0
SESTD1	91404	bcgsc.ca	37	2	180041254	180041254	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	SESTD1-228	NM_178123	exon4	c.A176C	p.K59T	CTAGCCTTACACT	.	68	4	47	0	.	0	0	0	0	0
USP37	57695	hgsc.bcm.edu;bcgsc.ca	37	2	219328058	219328058	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	USP37-661	NM_020935	exon22	c.T2498C	p.L833P	CTTTTGAGGTCAT	.	87	5	99	0	.	0	0	0	0	0
PTPRN	5798	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	220161767	220161767	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	PTPRN-229	NM_002846	exon15	c.T2176G	p.C726G	TGGCACAGGTGTT	.	75	21	80	0	.	0	0	0	0	0
COL6A3	1293	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	238275884	238275884	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	COL6A3-526	NM_004369	exon11	c.A4946G	p.N1649S	CTGAAGTTGATGG	.	52	9	60	0	.	10	10	0	0	0
SLC23A2	9962	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	20	4855238	4855238	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	SLC23A2-92	NM_203327	exon10	c.T929A	p.L310Q	TTGAACAGCTGTA	.	181	28	213	0	.	7	6	1	0	0
ATP9A	10079	hgsc.bcm.edu	37	20	50221537	50221537	+	Silent	SNP	C	C	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	ATP9A-94	NM_006045	exon27	c.G2826C	p.A942A	CAGCAGCGCCCCG	.	30	2	34	0	.	10	10	0	0	0
ATP9A	10079	hgsc.bcm.edu	37	20	50224072	50224072	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	ATP9A-94	NM_006045	exon26	c.T2797C	p.Y933H	CTTGATAGATGCT	.	40	2	39	0	.	0	0	0	0	0
LAMA5	3911	broad.mit.edu	37	20	60901783	60901783	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	LAMA5-93	NM_005560	exon40	c.G5248A	p.A1750T	GGTATGCCGGCTC	.	76	4	63	0	.	20	20	0	0	0
ITSN1	6453	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	21	35239577	35239577	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	ITSN1-94	NM_003024	exon33	c.C4115A	p.S1372Y	CACTCTCTAGTTT	.	102	21	119	1	.	2	2	0	0	0
MYO18B	84700	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	22	26423002	26423002	+	Silent	SNP	C	C	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	MYO18B-142	NM_032608	exon43	c.C7062G	p.L2354L	GTCCCTCTTAGAA	.	200	48	185	0	.	0	0	0	0	0
PKDREJ	10343	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	22	46653660	46653660	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	PKDREJ-156	NM_006071	exon1	c.A5560C	p.N1854H	ATCCATTGGTACT	.	137	34	134	0	.	0	0	0	0	0
PPP6R2	9701	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	22	50878437	50878437	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	PPP6R2-92	NM_001242898	exon21	c.G2333T	p.S778I	AATGCAGCCATGC	.	69	13	86	0	.	44	32	12	0	0
SETD5	55209	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	9512542	9512542	+	Silent	SNP	T	T	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	SETD5-70	NM_001080517	exon19	c.T3124C	p.L1042L	GGATCCTTGTCAC	.	25	4	24	0	.	7	4	3	0	0
CAPN7	23473	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	15262464	15262464	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	CAPN7-91	NM_014296	exon5	c.C614T	p.T205I	GATACACAGCAGA	.	65	16	51	0	.	12	7	5	0	0
EXOSC7	23016	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	45048921	45048921	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	EXOSC7-90	NM_015004	exon7	c.C625T	p.R209W	GGCTATCGGCATG	.	31	10	57	0	.	0	0	0	0	0
TREX1	11277	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	48508760	48508760	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	TREX1-227	NM_016381	exon1	c.A871T	p.T291S	GGGGTCACAGCCT	.	93	12	101	0	.	45	24	21	0	0
VPS8	23355	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	184700420	184700420	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	VPS8-91	NM_001009921	exon40	c.C3487T	p.H1163Y	ATTCCTCATCTAC	.	71	13	65	0	.	11	3	8	0	0
IDUA	3425	hgsc.bcm.edu	37	4	980971	980971	+	Missense_Mutation	SNP	T	T	G	rs10794537		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	IDUA-91	NM_000203	exon1	c.T99G	p.H33Q	GGTGCATGTGGAC	.	3	3	1	1	T|0.175;G|0.825	5	0	5	0	0
ABCG2	9429	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	89042889	89042889	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	ABCG2-90	NM_004827	exon6	c.T587G	p.I196R	ATTCCTATACTAG	.	75	13	70	0	.	4	4	0	0	0
KIAA1109	84162	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	123156097	123156097	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	KIAA1109-80	NM_015312	exon25	c.G3493T	p.E1165X	AGTGCAGAGTCTG	.	107	25	102	0	.	5	4	1	0	0
FASTKD3	79072	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	7867621	7867621	+	Silent	SNP	A	A	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	FASTKD3-156	NM_024091	exon2	c.T576C	p.P192P	ACTTTGAGGATCC	.	180	23	130	0	.	18	13	5	0	0
ADAMTS6	11174	hgsc.bcm.edu	37	5	64537954	64537954	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	ADAMTS6-226	NM_197941	exon15	c.A1910C	p.Y637S	CAGTTATAATACT	.	79	4	67	0	.	0	0	0	0	0
SPATA9	83890	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	94994451	94994451	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	SPATA9-90	NM_031952	exon5	c.G641C	p.R214T	AATGACCTATAAG	.	62	10	51	0	.	0	0	0	0	0
SLC36A2	153201	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	150701645	150701645	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	SLC36A2-91	NM_181776	exon9	c.T1142A	p.L381Q	AGATCCAGAGGCA	.	147	31	130	0	.	1	0	1	0	0
DOCK2	1794	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	169463529	169463529	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	DOCK2-97	NM_004946	exon36	c.A3635G	p.K1212R	TCTACAAAGATAA	.	85	23	74	0	.	0	0	0	0	0
NSD1	64324	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	176696648	176696648	+	Silent	SNP	C	C	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	NSD1-188	NM_022455	exon16	c.C5349T	p.N1783N	TTCCAACATTGAT	.	89	14	73	0	.	6	3	3	0	0
FAM50B	26240	broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	3850443	3850443	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	FAM50B-91	NM_012135	exon2	c.C398T	p.A133V	CCGACGCGGCCGA	.	41	7	54	0	.	24	24	0	0	0
SLC35B3	51000	hgsc.bcm.edu	37	6	8413926	8413926	+	Silent	SNP	T	T	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	SLC35B3-90	NM_001142540	exon11	c.A1062G	p.V354V	AGACCATACATAC	.	15	2	11	0	.	0	0	0	0	0
ATXN1	6310	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	6	16327407	16327407	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	ATXN1-93	NM_001128164	exon7	c.C1135T	p.R379W	AGGCCCGGACCCC	.	239	56	244	2	.	6	4	2	0	0
CLPS	1208	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	6	35765001	35765001	+	Missense_Mutation	SNP	C	C	G	rs140966197	byfrequency;alternate_allele	TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	CLPS-90	NM_001252598	exon1	c.G65C	p.R22P	ATCCCCCGGGGGC	.	153	13	118	0	C|0.999;T|0.001	0	0	0	0	0
GLTSCR1L	23506	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	42796705	42796705	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	.	NM_015349	exon5	c.C634G	p.Q212E	TCTGGTCAAATAC	.	221	35	215	0	.	5	2	3	0	0
MRPL2	51069	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	43023646	43023646	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	MRPL2-90	NM_015950	exon5	c.T620G	p.I207S	GCTCGGATATATT	.	41	10	44	0	.	1	1	0	0	0
SENP6	26054	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	76412443	76412443	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	SENP6-660	NM_015571	exon19	c.G2371A	p.A791T	GAAAATGCTGTCA	.	62	11	58	0	.	21	14	7	0	0
SHPRH	257218	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	146234630	146234630	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	SHPRH-92	NM_173082	exon24	c.G4322C	p.R1441P	AGCTGTCGAGCAC	.	95	18	80	0	.	0	0	0	0	0
LPA	4018	broad.mit.edu;bcgsc.ca	37	6	161027563	161027563	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	LPA-74	NM_005577	exon18	c.G2731A	p.V911I	GCGCGACGGCAGT	.	194	8	207	0	.	0	0	0	0	0
FAM188B	84182	hgsc.bcm.edu	37	7	30893077	30893077	+	Splice_Site	SNP	T	T	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	FAM188B-90	NM_032222	exon12	c.1677+2T>C	.	ATCAGGTATGAAG	.	24	2	30	0	.	0	0	0	0	0
KIAA0895	23366	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	36396613	36396613	+	Silent	SNP	G	G	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	KIAA0895-90	NM_001100425	exon3	c.C765T	p.F255F	AGATTTGAAGAAT	.	79	11	85	0	.	2	2	0	0	0
VPS41	27072	broad.mit.edu;bcgsc.ca	37	7	38783049	38783049	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	VPS41-93	NM_014396	exon24	c.A2075T	p.D692V	TCTCCATCATCTT	.	105	6	113	0	.	45	40	5	0	0
URGCP	55665	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	43918082	43918082	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	URGCP-94	NM_001077663	exon6	c.T980G	p.I327S	GGGAAAATGTCCA	.	109	24	76	0	.	18	9	9	0	0
ABCA13	154664	broad.mit.edu	37	7	48315672	48315672	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	ABCA13-521	NM_152701	exon17	c.G6409A	p.D2137N	AATGAGGATTACT	.	19	3	18	0	.	0	0	0	0	0
LIMK1	3984	bcgsc.ca	37	7	73535525	73535525	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	LIMK1-523	NM_002314	exon16	c.G1838A	p.G613D	TGGCCGGCCACCT	.	67	6	71	0	.	23	22	0	1	0
RELN	5649	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	103629656	103629656	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	RELN-574	NM_173054	exon1	c.G148A	p.G50R	GCTCCCCATCCCC	.	112	20	90	0	.	0	0	0	0	0
CNOT4	4850	hgsc.bcm.edu;bcgsc.ca	37	7	135080545	135080545	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	CNOT4-90	NM_001190850	exon9	c.T970C	p.S324P	AAGGGGACCGTGC	.	58	4	57	1	.	27	27	0	0	0
KIAA1549	57670	broad.mit.edu;ucsc.edu	37	7	138602635	138602635	+	Silent	SNP	C	C	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	KIAA1549-369	NM_020910	exon2	c.G1737A	p.P579P	AAGCGACGGTGTG	.	17	4	11	0	.	15	12	3	0	0
CHD7	55636	hgsc.bcm.edu	37	8	61761115	61761115	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	CHD7-141	NM_017780	exon24	c.A5252C	p.E1751A	GACAAGAAGTGAT	.	37	2	40	0	.	5	5	0	0	0
TRPA1	8989	hgsc.bcm.edu	37	8	72950286	72950286	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	TRPA1-230	NM_007332	exon20	c.T2317G	p.C773G	TCATACAAGTTTT	.	26	2	13	0	.	0	0	0	0	0
HAS2	3037	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	8	122641473	122641473	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	HAS2-236	NM_005328	exon2	c.T108A	p.F36L	TTGGATAAACTGG	.	90	16	95	0	.	1	1	0	0	0
ZBTB43	23099	broad.mit.edu;ucsc.edu;bcgsc.ca	37	9	129595385	129595385	+	Silent	SNP	G	G	T	rs34266321	byfrequency;alternate_allele	TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	ZBTB43-91	NM_001135776	exon2	c.G597T	p.S199S	CAACTCGTCCACA	.	59	6	38	0	G|0.999;A|0.001	8	3	5	0	0
COL5A1	1289	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	9	137734002	137734002	+	Splice_Site	SNP	G	G	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	COL5A1-524	NM_000093	exon66	c.5371-1G>C	.	TCCCCAGACCAAG	.	100	12	82	0	.	0	0	0	0	0
MAGEB4	4115	hgsc.bcm.edu	37	X	30260477	30260477	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	MAGEB4-131	NM_002367	exon1	c.G225C	p.M75I	AGCTATGTCATGC	.	21	2	25	0	.	0	0	0	0	0
DACH2	117154	hgsc.bcm.edu	37	X	86087132	86087132	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	DACH2-136	NM_053281	exon12	c.A1774G	p.M592V	TTAGAAATGGCAC	.	33	2	26	0	.	0	0	0	0	0
ARHGEF6	9459	broad.mit.edu	37	X	135754263	135754263	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	ARHGEF6-227	NM_004840	exon20	c.C2051G	p.S684C	GGAATGGAATCTT	.	94	4	94	0	.	13	13	0	0	0
FMR1	2332	hgsc.bcm.edu;bcgsc.ca	37	X	147011651	147011651	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	FMR1-133	NM_002024	exon7	c.T518A	p.I173N	AGTCCATCAATGA	.	47	4	69	0	.	0	0	0	0	0
PPRC1	23082	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	10	103898442	103898442	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	PPRC1-227	NM_015062	exon3	c.409delA	p.N137fs	.	.	90	15	87	0	.	0	0	0	0	0
ARAP1	116985	broad.mit.edu	37	11	72399555	72399555	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	ARAP1-91	NM_001040118	exon31	c.4015delA	p.I1339fs	TCTTAATAGGCCA	.	28	8	36	0	.	0	0	0	0	0
TECTA	7007	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	120980039	120980039	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	TECTA-225	NM_005422	exon3	c.318delA	p.G106fs	.	.	76	19	72	0	.	0	0	0	0	0
CACNA1G	8913	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	17	48692731	48692732	+	Frame_Shift_Del	DEL	GC	GC	-	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	CACNA1G-67	NM_001256325	exon27	c.4790_4791del	p.1597_1597del	.	.	75	13	50	0	.	0	0	0	0	0
TNRC6C	57690	broad.mit.edu	37	17	76046980	76046980	+	Frame_Shift_Del	DEL	A	A	-	rs71717398		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	TNRC6C-24	NM_018996	exon4	c.1837delA	p.K613fs	GATGGGAAAAAAA	.	169	5	110	0	.	0	0	0	0	0
GAA	2548	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	17	78085893	78085894	+	Frame_Shift_Del	DEL	CC	CC	-	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	GAA-91	NM_001079803	exon13	c.1748_1749del	p.583_583del	.	.	107	20	108	0	.	0	0	0	0	0
LCT	3938	broad.mit.edu;bcgsc.ca	37	2	136566494	136566494	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	LCT-101	NM_002299	exon8	c.3423delA	p.E1141fs	AGCGGCTTCCACA	.	156	21	127	0	.	0	0	0	0	0
PCDH18	54510	broad.mit.edu;bcgsc.ca	37	4	138452043	138452043	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	PCDH18-185	NM_019035	exon1	c.1200delT	p.H400fs	ATGTCCATGAAGC	.	87	13	79	0	.	0	0	0	0	0
SEC24A	10802	broad.mit.edu;bcgsc.ca	37	5	133997149	133997160	+	In_Frame_Del	DEL	CTCACAAACAAA	CTCACAAACAAA	-	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	CTCACAAACAAA	CTCACAAACAAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	SEC24A-68	NM_001252231	exon2	c.438_449del	p.146_150del	CACAGCCTCACAA	.	101	12	106	0	.	0	0	0	0	0
STAG3L2	442582	broad.mit.edu	37	7	74300557	74300564	+	RNA	DEL	AGAGCTCC	AGAGCTCC	-	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	AGAGCTCC	AGAGCTCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	.	.	.	.	.	CAGTGAAGAGCTC	.	229	3	183	0	.	0	0	0	0	0
POLB	5423	broad.mit.edu;bcgsc.ca	37	8	42213041	42213041	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	POLB-1084	NM_002690	exon7	c.378delA	p.R126fs	TCTCAGAAAAAAT	.	81	9	86	0	.	0	0	0	0	0
SMC1A	8243	broad.mit.edu;bcgsc.ca	37	X	53442034	53442036	+	In_Frame_Del	DEL	ATC	ATC	-	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	ATC	ATC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	SMC1A-232	NM_006306	exon2	c.192_194del	p.64_65del	CCATGGATCAGGT	.	27	8	28	0	.	0	0	0	0	0
ABCA13	154664	broad.mit.edu;bcgsc.ca	37	7	48317816	48317817	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	ABCA13-521	NM_152701	exon18	c.7025_7026insT	p.S2342fs	TGAAAAGTTCATT	.	22	8	27	0	.	0	0	0	0	0
PTCHD1	139411	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	X	23411958	23411959	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	PTCHD1-135	NM_173495	exon3	c.2323_2324insG	p.F775fs	.	.	44	19	55	0	.	0	0	0	0	0
BFSP1	631	hgsc.bcm.edu	37	20	17511868	17511869	+	Missense_Mutation	DNP	GC	GC	AA	novel		TCGA-A4-7585-01A-11D-2136-08	TCGA-A4-7585-11A-01D-2136-08	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	62550e91-8d87-4feb-a763-bedc2e84cebe	2e2066d9-8dd8-4483-8bd9-67b26cbedc59	.	BFSP1		exon1	c.G106T	p.A36F	CCCCAGCCCAGCC	.	9.0	8.0	3.0	1.0	.	0	0	0	0	0
