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
PRAMEF4	400735	broad.mit.edu;bcgsc.ca	37	1	12939507	12939507	+	Missense_Mutation	SNP	C	C	G	rs140792942		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	PRAMEF4-45	NM_001009611	exon4	c.G1295C	p.R432T	GCAAATCTGCTCC	.	217	55	244	2	C|1.000;G|0.000	0	0	0	0	0
PRAMEF10	343071	ucsc.edu	37	1	12952796	12952796	+	Missense_Mutation	SNP	T	T	G	rs2637919	bycluster;byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	PRAMEF10-90	NM_001039361	exon4	c.A1376C	p.N459T	CCACAGTTAGGGC	.	41	17	170	12	T|0.667;G|0.333	0	0	0	0	0
TMEM50A	23585	bcgsc.ca	37	1	25678142	25678142	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	TMEM50A-90	NM_014313	exon4	c.G232T	p.V78F	GGACAAGTCCGAG	.	54	4	80	0	.	58	58	0	0	0
CSMD2	114784	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	34276428	34276428	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	CSMD2-103	NM_052896	exon10	c.C1242T	p.G414G	GATGATGCCCGAG	.	16	6	46	0	.	0	0	0	0	0
DNAJC6	9829	bcgsc.ca	37	1	65858145	65858145	+	Silent	SNP	G	G	A	rs4325172	byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	DNAJC6-272	NM_001256864	exon12	c.G1500A	p.E500E	TGAGGAGGACCAC	.	77	5	226	1	G|0.576;A|0.424	2	2	0	0	0
SV2A	9900	bcgsc.ca	37	1	149876665	149876665	+	Silent	SNP	G	G	A	rs13067	bycluster;byfrequency;by1000genomes	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	SV2A-97	NM_014849	exon13	c.C2130T	p.I710I	CTTGGTGATTCCC	.	480	40	352	1	G|0.984;A|0.016	2	2	0	0	0
SPTA1	6708	broad.mit.edu	37	1	158641186	158641186	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	SPTA1-142	NM_003126	exon12	c.C1546T	p.Q516X	GCTTCTGAAGAAG	.	161	6	70	0	.	0	0	0	0	0
SPTA1	6708	broad.mit.edu;bcgsc.ca	37	1	158644356	158644356	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	SPTA1-142	NM_003126	exon9	c.C1222T	p.L408L	CCAGCAGAACTTC	.	183	12	96	1	.	0	0	0	0	0
OR10J1	26476	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	159410014	159410014	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	OR10J1-69	NM_012351	exon1	c.G466T	p.V156F	CAACTTGTCCTGG	.	800	83	239	0	.	0	0	0	0	0
OLFML2B	25903	bcgsc.ca	37	1	161967692	161967692	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	OLFML2B-69	NM_015441	exon6	c.C1397T	p.A466V	GCAGGAGCATCTT	.	280	8	96	0	.	10	10	0	0	0
FMO1	2326	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	171254505	171254505	+	Missense_Mutation	SNP	G	G	A	rs28360433	byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	FMO1-515	NM_002021	exon9	c.G1421A	p.R474H	AGTTCCGCTTGAC	.	99	14	109	0	G|0.994;A|0.006	0	0	0	0	0
HMCN1	83872	broad.mit.edu	37	1	185956605	185956605	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	HMCN1-113	NM_031935	exon20	c.A2977G	p.I993V	AGTACAATTGAAG	.	63	3	88	0	.	0	0	0	0	0
PM20D1	148811	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	205797785	205797785	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	PM20D1-69	NM_152491	exon13	c.C1472G	p.T491R	TGGTCTGTGTCAG	.	54	9	67	0	.	0	0	0	0	0
NLRP3	114548	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	247587746	247587746	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	NLRP3-674	NM_183395	exon3	c.G1001A	p.S334N	TGAGCAGCCTCAT	.	84	28	110	0	.	0	0	0	0	0
ECHDC3	79746	hgsc.bcm.edu;bcgsc.ca	37	10	11805375	11805375	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	ECHDC3-90	NM_024693	exon5	c.G744A	p.V248V	GGTGGTGTCCCTG	.	41	7	33	0	.	3	3	0	0	0
ENTPD1-AS1	0	bcgsc.ca;mdanderson.org	37	10	97698599	97698599	+	RNA	SNP	A	A	G	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	.	.	.	.	.	TTACCTACACCTA	.	171	37	202	0	.	1	1	0	0	0
SLIT1	6585	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	98799839	98799839	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	SLIT1-94	NM_003061	exon21	c.C2203T	p.P735S	CCTGTGGGCACTG	.	203	39	222	0	.	1	1	0	0	0
PTPMT1	114971	broad.mit.edu	37	11	47587390	47587390	+	Silent	SNP	C	C	T	rs193125282	by1000genomes	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	PTPMT1-23	NM_001143984	exon1	c.C216T	p.R72R	TCCCCGCCGCTCC	.	45	8	34	1	C|0.998;T|0.002	6	5	1	0	0
PC	5091	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	66636324	66636324	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	PC-228	NM_000920	exon9	c.A1015G	p.I339V	CGGTGATCTCCTC	.	79	7	100	0	.	0	0	0	0	0
MRPS35	60488	bcgsc.ca	37	12	27867727	27867727	+	Missense_Mutation	SNP	G	G	A	rs1127787	byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	MRPS35-90	NM_001190864	exon2	c.G127A	p.G43R	ACACCCGGAAATG	.	97	6	103	1	G|0.873;A|0.127	0	0	0	0	0
KRT1	3848	hgsc.bcm.edu	37	12	53069243	53069243	+	Missense_Mutation	SNP	T	T	C	rs77846840		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	KRT1-92	NM_006121	exon9	c.A1669G	p.S557G	AGCTGCTACCTCC	.	17	4	19	0	T|0.500;C|0.500	0	0	0	0	0
DNAJC14	85406	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	12	56215846	56215846	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	DNAJC14-229	NM_032364	exon7	c.C2024T	p.A675V	GAGGCTGCAGCGG	.	66	31	85	0	.	16	8	8	0	0
MMP19	4327	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	56231788	56231788	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	MMP19-227	NM_002429	exon7	c.C899T	p.P300L	CCACGGGGCCCTG	.	56	15	87	0	.	0	0	0	0	0
MBD6	114785	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	12	57922471	57922471	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	MBD6-516	NM_052897	exon11	c.A2843C	p.K948T	TCAGAAAGTCTCG	.	88	8	116	0	.	31	26	5	0	0
WIF1	11197	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	12	65448919	65448919	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	WIF1-1110	NM_007191	exon9	c.C997A	p.H333N	TTCCATGCCAACC	.	68	6	58	0	.	0	0	0	0	0
EP400	57634	broad.mit.edu	37	12	132547087	132547087	+	Silent	SNP	G	G	A	rs12366766		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	EP400-520	NM_015409	exon47	c.G8175A	p.Q2725Q	GCAGCAGCAACAA	.	59	8	101	0	.	1	1	0	0	0
CCDC168	643677	bcgsc.ca	37	13	103398682	103398682	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	.	NM_001146197	exon4	c.C4365A	p.D1455E	CTCTCTGTCATGG	.	52	4	70	0	.	0	0	0	0	0
ERCC5	2073	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	13	103498624	103498624	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	ERCC5-689	NM_000123	exon1	c.T8A	p.V3D	TGGGGGTCCAGGG	.	22	14	32	0	.	8	3	5	0	0
LRP10	26020	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	23345363	23345363	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	LRP10-90	NM_014045	exon5	c.C1206T	p.G402G	GCCTGGCAATTTC	.	71	9	68	0	.	77	68	9	0	0
EXOC5	10640	bcgsc.ca	37	14	57714427	57714427	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	EXOC5-137	NM_006544	exon2	c.C31A	p.P11T	CAAAAGGCTCCTA	.	135	5	131	0	.	0	0	0	0	0
MTHFD1	4522	broad.mit.edu	37	14	64884686	64884686	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	MTHFD1-92	NM_005956	exon7	c.T559G	p.W187G	CTTCTGTGGAACA	.	69	6	86	1	.	42	42	0	0	0
ADAM21	8747	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	70926008	70926008	+	Silent	SNP	A	A	C	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	ADAM21-92	NM_003813	exon2	c.A1792C	p.R598R	CATTTAAGGATGA	.	313	146	363	1	.	0	0	0	0	0
FAM161B	145483	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	74411292	74411292	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	FAM161B-91	NM_152445	exon3	c.A860T	p.H287L	TAGACATGTGCAG	.	65	27	79	0	.	3	1	2	0	0
CEP152	22995	hgsc.bcm.edu	37	15	49034286	49034286	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	CEP152-70	NM_001194998	exon25	c.C3847A	p.R1283S	TATAACGAAGCAT	.	75	4	66	0	.	0	0	0	0	0
PML	5371	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	74335395	74335395	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	PML-1083	NM_002675	exon8	c.C1776T	p.T592T	CAGCACCCTCAGG	.	75	9	94	0	.	1	0	1	0	0
LRRK1	79705	broad.mit.edu	37	15	101528910	101528910	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	LRRK1-602	NM_024652	exon5	c.G505T	p.V169L	GGGGTTGTGAAGC	.	52	3	82	0	.	0	0	0	0	0
CCNF	899	broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	2506732	2506732	+	Missense_Mutation	SNP	G	G	A	rs148419125	byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	CCNF-658	NM_001761	exon17	c.G2072A	p.R691Q	CCAGCCGGGAGCC	.	145	31	127	1	G|1.000;A|0.000	2	2	0	0	0
DNAH3	55567	broad.mit.edu	37	16	20966303	20966303	+	Missense_Mutation	SNP	G	G	T	rs148915896	alternate_allele	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	DNAH3-167	NM_017539	exon55	c.C10903A	p.P3635T	TGGGGGGCTCATT	.	70	3	60	0	G|1.000;A|0.000	0	0	0	0	0
ZFPM1	161882	broad.mit.edu	37	16	88599696	88599697	+	Frame_Shift_Del	DEL	GA	GA	-	rs67549438	alternate_allele	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	ZFPM1-90	NM_153813	exon10	c.1330_1331del	p.444_444del	AGAGCGGAGCCTC	.	15	9	5	0	.	0	0	0	0	0
NLRP1	22861	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	5424256	5424256	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	NLRP1-274	NM_001033053	exon14	c.G3872A	p.G1291D	CGACAGCCCATAT	.	24	21	46	0	.	0	0	0	0	0
MFSD6L	162387	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	8702218	8702218	+	Missense_Mutation	SNP	C	C	T	rs111726322	byfrequency;alternate_allele	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	MFSD6L-90	NM_152599	exon1	c.G221A	p.R74Q	CTTTTCCGGTAGC	.	67	20	83	0	C|0.986;A|0.014	0	0	0	0	0
MYH3	4621	ucsc.edu;bcgsc.ca	37	17	10551910	10551910	+	Silent	SNP	G	G	A	rs16943604	byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	MYH3-95	NM_002470	exon8	c.C699T	p.N233N	CTTGGCGTTCCCA	.	212	45	213	3	G|0.987;A|0.013	0	0	0	0	0
RAI1	10743	broad.mit.edu	37	17	17700826	17700826	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	RAI1-91	NM_030665	exon3	c.G4564T	p.A1522S	ACAAGGGCACAGA	.	99	3	132	0	.	16	16	0	0	0
KRTAP4-5	85289	ucsc.edu	37	17	39305785	39305785	+	Missense_Mutation	SNP	A	A	T	rs411367		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	KRTAP4-5-90	NM_033188	exon1	c.T235A	p.C79S	AGCAGCAGGGGCG	.	54	16	44	2	A|0.354;T|0.646	0	0	0	0	0
CD300A	11314	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	72470793	72470793	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	CD300A-92	NM_007261	exon3	c.C502A	p.Q168K	AGCATCCAGGAGG	.	135	25	170	0	.	0	0	0	0	0
LONP1	9361	broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	5707755	5707755	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	LONP1-91	NM_004793	exon6	c.T1015C	p.F339L	CCCCGGTGAGCGC	.	158	26	203	1	.	117	85	32	0	0
KANK3	256949	broad.mit.edu	37	19	8398950	8398961	+	In_Frame_Del	DEL	TCGCTGTCGCCA	TCGCTGTCGCCA	-	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	KANK3-90	NM_198471	exon5	c.1467_1478del	p.489_493del	CCGTTCTCGCTGT	.	15	5	10	0	.	0	0	0	0	0
QTRT1	81890	hgsc.bcm.edu;broad.mit.edu	37	19	10823651	10823651	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	QTRT1-91	NM_031209	exon9	c.G994A	p.A332T	CTGCACGCACTGC	.	58	4	87	0	.	53	51	2	0	0
CCDC105	126402	hgsc.bcm.edu	37	19	15133926	15133926	+	Missense_Mutation	SNP	C	C	A	rs8112667	byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	CCDC105-91	NM_173482	exon7	c.C1495A	p.P499T	GCGGACCCCTAGT	.	10	5	1	0	C|0.671;A|0.329	0	0	0	0	0
UPF1	5976	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	18966869	18966869	+	Silent	SNP	C	C	G	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	UPF1-91	NM_002911	exon12	c.C1680G	p.A560A	TCTGGCCCTGCAC	.	119	24	127	0	.	34	26	8	0	0
URI1	8725	broad.mit.edu	37	19	30500035	30500035	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	.	NM_003796	exon8	c.G810C	p.K270N	TCATAAGGATGTT	.	78	4	119	0	.	46	43	3	0	0
STRN	6801	ucsc.edu	37	2	37152329	37152329	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	STRN-91	NM_003162	exon2	c.G257A	p.G86E	CTTTCTCCCTGCA	.	101	18	115	2	.	2	2	0	0	0
DCTN1	1639	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	2	74588719	74588719	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	DCTN1-95	NM_004082	exon32	c.G3744A	p.V1248V	GAAGGTCACTTTG	.	34	6	87	0	.	54	24	29	1	0
DNAH6	1768	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	84924798	84924798	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	DNAH6-69	NM_001370	exon47	c.G7624T	p.A2542S	TTAGCGGCCACCA	.	388	44	96	0	.	1	1	0	0	0
EN1	2019	broad.mit.edu	37	2	119600586	119600586	+	Silent	SNP	C	C	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	EN1-154	NM_001426	exon2	c.G1107T	p.A369A	GTGCAGCGCCAGG	.	69	7	91	5	.	0	0	0	0	0
ZRANB3	84083	broad.mit.edu;bcgsc.ca	37	2	135965341	135965341	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	ZRANB3-658	NM_032143	exon19	c.C2672T	p.T891I	TTCACAGTGAGAT	.	66	28	69	2	.	1	1	0	0	0
SP5	389058	hgsc.bcm.edu	37	2	171573185	171573185	+	Silent	SNP	G	G	T	rs1134626	byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	SP5-90	NM_001003845	exon2	c.G468T	p.P156P	GCTGCCGCCAGGC	.	4	4	0	0	G|0.766;T|0.234	1	0	1	0	0
FAM171B	165215	ucsc.edu	37	2	187559050	187559050	+	Silent	SNP	A	A	G	rs75768569		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	FAM171B-141	NM_177454	exon1	c.A150G	p.Q50Q	GCAGCAACAACAA	.	83	6	100	1	A|0.500;G|0.500	8	7	1	0	0
CLK1	1195	broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	201719353	201719353	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	CLK1-784	NM_001162407	exon11	c.G1332A	p.M444I	CTGTATCATATGT	.	53	6	104	0	.	169	130	39	0	0
FAM124B	79843	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	225266236	225266236	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	FAM124B-92	NM_024785	exon1	c.C250T	p.R84C	GGACGCGAAATAG	.	93	19	110	0	.	0	0	0	0	0
KLHL30	377007	broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	239059526	239059526	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	KLHL30-22	NM_198582	exon8	c.C1557T	p.G519G	GACGGGCGGCCGC	.	155	21	236	1	.	0	0	0	0	0
BPIFB4	149954	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	20	31671359	31671359	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	.	NM_182519	exon3	c.G356A	p.R119Q	ACCTCCGAAACAG	.	125	8	138	0	.	0	0	0	0	0
TFAP2C	7022	broad.mit.edu	37	20	55206414	55206414	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	TFAP2C-514	NM_003222	exon2	c.G202A	p.A68T	CAGCTGGCCTACT	.	75	4	73	0	.	1	1	0	0	0
CTCFL	140690	hgsc.bcm.edu;broad.mit.edu	37	20	56090847	56090847	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	CTCFL-292	NM_001269044	exon5	c.G1103A	p.R368H	AAGGGGCGCTCCC	.	44	5	39	0	.	0	0	0	0	0
CDH4	1002	broad.mit.edu	37	20	60348208	60348208	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	CDH4-282	NM_001794	exon4	c.G546A	p.S182S	GAACTCGCGCGGG	.	104	4	76	0	.	0	0	0	0	0
OLIG2	10215	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	21	34399459	34399459	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	OLIG2-629	NM_005806	exon2	c.G289A	p.D97N	AAGAAGGACAAGA	.	132	25	155	0	.	0	0	0	0	0
NEFH	4744	ucsc.edu	37	22	29885594	29885594	+	Silent	SNP	A	A	T	rs79235463	byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	NEFH-90	NM_021076	exon4	c.A1965T	p.P655P	GTCCCCAGAGAAG	.	205	37	263	1	A|0.500;T|0.500	7	7	0	0	0
STAB1	23166	broad.mit.edu	37	3	52546974	52546974	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	STAB1-139	NM_015136	exon29	c.G3158T	p.R1053M	TGGTCAGGTGGGG	.	86	3	95	0	.	1	1	0	0	0
DZIP3	9666	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	108407467	108407467	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	DZIP3-91	NM_014648	exon30	c.A3298G	p.N1100D	AATGTTAATTGTG	.	179	95	260	0	.	9	3	6	0	0
PODXL2	50512	broad.mit.edu;bcgsc.ca	37	3	127379708	127379708	+	Silent	SNP	C	C	T	rs114235935	byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	PODXL2-91	NM_015720	exon3	c.C837T	p.F279F	AGAGTTCGAGGCT	.	80	14	112	0	C|0.997;T|0.003	12	9	3	0	0
CP	1356	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	148896230	148896230	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	CP-515	NM_000096	exon16	c.G2850C	p.E950D	GAATTCCTCATCA	.	88	15	107	0	.	4	4	0	0	0
SLITRK3	22865	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	164908554	164908554	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	SLITRK3-100	NM_014926	exon2	c.C65T	p.T22I	GCAATTGTGCTTA	.	67	15	113	0	.	0	0	0	0	0
CHRNA9	55584	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	4	40337918	40337918	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	CHRNA9-96	NM_017581	exon2	c.C139T	p.R47C	GCTCTTCGTCCAG	.	144	8	133	0	.	0	0	0	0	0
FRAS1	80144	broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	79328954	79328954	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	FRAS1-68	NM_001166133	exon31	c.C4267T	p.H1423Y	TACAGGCACTCAG	.	126	41	172	1	.	0	0	0	0	0
DSPP	1834	bcgsc.ca	37	4	88536999	88536999	+	Missense_Mutation	SNP	A	A	G	rs202222170		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	DSPP-90	NM_014208	exon5	c.A3185G	p.D1062G	GCAGTGACAGCAG	.	356	17	452	0	.	0	0	0	0	0
DSPP	1834	bcgsc.ca	37	4	88537426	88537426	+	Silent	SNP	T	T	C	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	DSPP-90	NM_014208	exon5	c.T3612C	p.S1204S	CGATAGTAGTGAT	.	451	45	516	28	.	0	0	0	0	0
FBXL7	23194	bcgsc.ca	37	5	15937010	15937010	+	Silent	SNP	C	C	T	rs61748187	byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	FBXL7-228	NM_012304	exon4	c.C1191T	p.L397L	GTACCTCGCCAAG	.	122	5	128	1	C|0.982;T|0.018	7	7	0	0	0
LOX	4015	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	5	121405754	121405754	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	LOX-650	NM_002317	exon6	c.T1241G	p.I414S	GGTGAAATTGTGC	.	247	16	117	0	.	0	0	0	0	0
PHAX	51808	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	5	125939673	125939673	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	PHAX-90	NM_032177	exon2	c.G508C	p.D170H	ACAAAAGATCTAG	.	268	16	96	0	.	51	51	0	0	0
PHAX	51808	broad.mit.edu;bcgsc.ca	37	5	125939735	125939735	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	PHAX-90	NM_032177	exon2	c.G570C	p.E190D	GGAAGAGGAAAAT	.	295	23	85	1	.	85	85	0	0	0
PHAX	51808	broad.mit.edu;bcgsc.ca	37	5	125939799	125939799	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	PHAX-90	NM_032177	exon2	c.G634C	p.E212Q	AGACCAGAAATGA	.	324	18	107	1	.	79	79	0	0	0
PHAX	51808	broad.mit.edu;bcgsc.ca	37	5	125939825	125939825	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	PHAX-90	NM_032177	exon2	c.G660A	p.E220E	ATACGAGATCACA	.	318	22	125	1	.	116	116	0	0	0
CDKN2AIPNL	91368	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	5	133745680	133745680	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	CDKN2AIPNL-68	NM_080656	exon2	c.C253G	p.L85V	CTAAAAGGTCTTT	.	103	11	65	0	.	23	23	0	0	0
KLHL3	26249	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	137056267	137056267	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	KLHL3-90	NM_017415	exon2	c.G21A	p.K7K	GCTCAGCTTGACA	.	90	13	97	0	.	0	0	0	0	0
PCDHGB1	56104	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	140731780	140731780	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	PCDHGB1-33	NM_018922	exon1	c.C1953T	p.S651S	ACTCTCCGCCACC	.	57	12	72	0	.	6	6	0	0	0
PCDHGB2	56103	broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	140741378	140741378	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	PCDHGB2-33	NM_018923	exon1	c.C1676T	p.A559V	ACAATGCGCCACG	.	113	17	134	1	.	1	1	0	0	0
RASGEF1C	255426	bcgsc.ca	37	5	179563435	179563435	+	Silent	SNP	T	T	C	rs11546322	byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	RASGEF1C-228	NM_175062	exon4	c.A381G	p.E127E	CGACTCTTCCTGG	.	314	11	280	1	T|0.588;C|0.412	0	0	0	0	0
E2F3	1871	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	20488470	20488470	+	Missense_Mutation	SNP	G	G	A	rs147333935	byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	E2F3-414	NM_001949	exon6	c.G1126A	p.A376T	AAACCCGCTTCCA	.	78	14	86	0	G|0.999;A|0.001	0	0	0	0	0
OR2B6	26212	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	27925596	27925596	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	OR2B6-69	NM_012367	exon1	c.C578T	p.T193I	AGACAACAGCAAA	.	129	54	177	0	.	0	0	0	0	0
GRIK2	2898	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	102511871	102511871	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	GRIK2-157	NM_175768	exon16	c.C2597A	p.P866Q	ACCATCCAGACAC	.	171	42	212	0	.	0	0	0	0	0
ESR1	2099	broad.mit.edu	37	6	152129382	152129382	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	ESR1-1042	NM_000125	exon1	c.A335C	p.H112P	TACTGCACCCGCC	.	67	14	58	7	.	0	0	0	0	0
STK31	56164	bcgsc.ca	37	7	23811800	23811800	+	Missense_Mutation	SNP	G	G	T	rs10247878	byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	STK31-338	NM_031414	exon15	c.G1868T	p.S623I	ATAAGAGTCCCAG	.	93	5	99	0	G|0.876;T|0.124	0	0	0	0	0
WNT2	7472	broad.mit.edu;bcgsc.ca	37	7	116937913	116937913	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	WNT2-1011	NM_003391	exon4	c.606delG	p.L202fs	TTGTTTCAAGAAC	.	28	8	33	0	.	0	0	0	0	0
WNT2	7472	broad.mit.edu;bcgsc.ca	37	7	116937915	116937916	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	WNT2-1011	NM_003391	exon4	c.603_604del	p.201_202del	GTTTCAAGAACCG	.	27	8	32	0	.	0	0	0	0	0
CLDN23	137075	hgsc.bcm.edu	37	8	8560536	8560536	+	Missense_Mutation	SNP	G	G	A	rs12548737	byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	.	NM_194284	exon1	c.G628A	p.V210M	ATCCAAGTGGAGT	.	6	6	2	0	G|0.907;A|0.093	2	0	2	0	0
DOCK5	80005	bcgsc.ca	37	8	25203011	25203013	+	In_Frame_Del	DEL	CCA	CCA	-	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	CCA	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	DOCK5-71	NM_024940	exon26	c.2638_2640del	p.880_880del	CTGCTGCCACTGC	.	23	4	63	0	.	0	0	0	0	0
ARMC1	55156	bcgsc.ca	37	8	66525548	66525548	+	Silent	SNP	T	T	C	rs11559265	byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	ARMC1-91	NM_018120	exon4	c.A396G	p.Q132Q	AAAAAATTGAGCT	.	79	4	106	1	T|0.731;C|0.269	23	23	0	0	0
RGS22	26166	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	101016248	101016248	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	RGS22-140	NM_015668	exon17	c.C2533T	p.P845S	CTGCAGGAACATT	.	92	17	117	0	.	0	0	0	0	0
COL14A1	7373	broad.mit.edu	37	8	121344902	121344902	+	Splice_Site	SNP	G	G	T	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	COL14A1-543	NM_021110	exon42	c.4714-1G>T	.	CTTCTAGGGCATT	.	62	3	84	0	.	0	0	0	0	0
HHLA1	10086	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	8	133090151	133090151	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	.	NM_001145095	exon11	c.C993T	p.S331S	GGGCACGGACGAT	.	99	45	115	0	.	0	0	0	0	0
KIAA1432	57589	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	9	5754924	5754924	+	Silent	SNP	A	A	G	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	KIAA1432-90	NM_001135920	exon15	c.A1686G	p.Q562Q	CCGTCAAGAAGAG	.	26	6	17	0	.	0	0	0	0	0
FRMPD1	22844	bcgsc.ca	37	9	37731007	37731007	+	Silent	SNP	C	C	T	rs2274324	byfrequency	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	FRMPD1-159	NM_014907	exon9	c.C765T	p.D255D	ACATGACTACCGC	.	52	4	59	0	C|0.942;T|0.058	0	0	0	0	0
PSAT1	29968	broad.mit.edu	37	9	80919786	80919786	+	Silent	SNP	T	T	G	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	PSAT1-91	NM_021154	exon4	c.T327G	p.A109A	GTCAGCTAAGGCC	.	84	8	121	1	.	84	83	1	0	0
COL5A1	1289	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	9	137710730	137710730	+	Missense_Mutation	SNP	G	G	A	rs183114696		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	COL5A1-524	NM_000093	exon56	c.G4375A	p.G1459S	CCGGACGGTCCCC	.	70	8	56	0	G|0.999;A|0.000	2	1	1	0	0
AKAP4	8852	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	X	49957052	49957052	+	Missense_Mutation	SNP	T	T	C	rs61751432	alternate_allele	TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	AKAP4-540	NM_003886	exon5	c.A2312G	p.Q771R	TGCTTCTGCAAGC	.	102	14	100	0	.	0	0	0	0	0
SHROOM4	57477	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	X	50377344	50377344	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	SHROOM4-131	NM_020717	exon4	c.C1729T	p.R577C	TCGAGCGGCCCCG	.	46	10	43	0	.	0	0	0	0	0
ITM2A	9452	ucsc.edu;bcgsc.ca	37	X	78616969	78616969	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	ITM2A-131	NM_004867	exon5	c.G560T	p.R187I	AGATATCTGCCAC	.	317	59	285	4	.	0	0	0	0	0
COL4A6	1288	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	107457358	107457358	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	COL4A6-199	NM_001847	exon6	c.G428T	p.G143V	AGAAGCCCAGGAT	.	64	24	68	0	.	0	0	0	0	0
GPR50	9248	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	X	150349287	150349287	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	GPR50-176	NM_004224	exon2	c.C1232G	p.S411C	GCCACTCCAAGGC	.	92	16	92	0	.	0	0	0	0	0
SRPK3	26576	broad.mit.edu	37	X	153047594	153047594	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	SRPK3-540	NM_014370	exon5	c.A406C	p.S136R	GACCCCAGTGACC	.	179	5	220	1	.	7	7	0	0	0
RABL2B	11158	hgsc.bcm.edu;bcgsc.ca	37	22	51208398	51208399	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	RABL2B-131	NM_001130920	exon7	c.344_345insT	p.W115fs	GTATACCAGGTGC	.	116	30	185	0	.	0	0	0	0	0
RFC1	5981	broad.mit.edu;bcgsc.ca	37	4	39310527	39310528	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-OR-A5LL-01A-11D-A29I-10	TCGA-OR-A5LL-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	9bfd4b2e-0577-4c94-8d6c-dafa9104b502	2d4f1606-9261-4ba8-96a9-ee307989af11	.	RFC1-230	NM_002913	exon13	c.1614_1615insT	p.L538fs	CTTTGCCAAACTG	.	78	9	76	0	.	0	0	0	0	0