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
PRKCZ	5590	bcgsc.ca	37	1	2103506	2103506	+	Silent	SNP	C	C	G	rs2280272	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	PRKCZ-1465	NM_002744	exon12	c.C1074G	p.A358A	CGCGGCCGAGATC	.	80	6	99	1	C|0.994;G|0.006	10	10	0	0	0
HES3	390992	hgsc.bcm.edu	37	1	6305292	6305292	+	Missense_Mutation	SNP	C	C	A	rs61760836		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	HES3-514	NM_001024598	exon4	c.C286A	p.P96T	CTGGTGCCCGAGA	.	7	7	0	0	C|0.430;A|0.570	0	0	0	0	0
HES3	390992	hgsc.bcm.edu	37	1	6305303	6305303	+	Silent	SNP	C	C	A	rs61760837		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	HES3-514	NM_001024598	exon4	c.C297A	p.A99A	GAGCGCCGCCGGC	.	5	5	0	0	C|0.438;A|0.562	0	0	0	0	0
H6PD	9563	bcgsc.ca	37	1	9307033	9307033	+	Silent	SNP	G	G	A	rs7524046	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	H6PD-90	NM_004285	exon3	c.G636A	p.A212A	TGTGGCGCAGATC	.	72	4	121	1	G|0.772;A|0.228	0	0	0	0	0
KIF17	57576	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	21013968	21013968	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	KIF17-94	NM_001122819	exon8	c.C1851T	p.A617A	CACCTCGGCAAAC	.	67	37	117	0	.	0	0	0	0	0
LUZP1	7798	bcgsc.ca	37	1	23418803	23418803	+	Missense_Mutation	SNP	G	G	C	rs35645814	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	LUZP1-90	NM_033631	exon4	c.C1952G	p.S651C	CCACTGGATTTGA	.	173	6	202	0	G|0.991;C|0.009	0	0	0	0	0
FOXD3	27022	hgsc.bcm.edu	37	1	63788951	63788951	+	Silent	SNP	C	C	A	rs2274187	bycluster;byfrequency;by1000genomes	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	FOXD3-226	NM_012183	exon1	c.C222A	p.P74P	GCCGCCCCACCAG	.	19	15	4	0	C|0.842;A|0.158	0	0	0	0	0
CTBS	1486	hgsc.bcm.edu	37	1	85040024	85040024	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	CTBS-90	NM_004388	exon1	c.G75A	p.L25L	CAGCGCCAGCAGC	.	36	3	8	0	.	1	1	0	0	0
SPRR3	6707	ucsc.edu;mdanderson.org	37	1	152975715	152975715	+	Silent	SNP	C	C	T	rs63405761	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	SPRR3-45	NM_001097589	exon2	c.C219T	p.G73G	GCCAGGCTGTACC	.	97	47	111	0	A|0.000;C|0.697;T|0.303	0	0	0	0	0
SPRR3	6707	hgsc.bcm.edu;ucsc.edu	37	1	152975739	152975739	+	Silent	SNP	T	T	A	rs17851565	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	SPRR3-45	NM_001097589	exon2	c.T243A	p.G81G	GCCAGGTTGTACC	.	97	22	123	0	A|0.010;C|0.001;T|0.988	0	0	0	0	0
BPNT1	10380	hgsc.bcm.edu	37	1	220236230	220236230	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	BPNT1-91	NM_006085	exon7	c.C541G	p.Q181E	TCAGCTGAAACCC	.	118	31	228	1	.	0	0	0	0	0
BPNT1	10380	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	220236230	220236233	+	Frame_Shift_Del	DEL	GAAA	GAAA	-	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	GAAA	GAAA	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	BPNT1-91	NM_006085	exon7	c.538_541del	p.180_181del	TCAGCTGAAACCC	.	120	23	228	0	.	0	0	0	0	0
BPNT1	10380	hgsc.bcm.edu	37	1	220236234	220236255	+	Frame_Shift_Del	DEL	CCCAAAGGCGCCTAAACCTAAA	CCCAAAGGCGCCTAAACCTAAA	-	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	CCCAAAGGCGCCTAAACCTAAA	CCCAAAGGCGCCTAAACCTAAA	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	BPNT1-91	NM_006085	exon7	c.516_537del	p.172_179del	CTGAAACCCAAAG	.	110	0	225	0	.	0	0	0	0	0
BPNT1	10380	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	220236235	220236252	+	In_Frame_Del	DEL	CCAAAGGCGCCTAAACCT	CCAAAGGCGCCTAAACCT	-	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	CCAAAGGCGCCTAAACCT	CCAAAGGCGCCTAAACCT	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	BPNT1-91	NM_006085	exon7	c.519_536del	p.173_179del	TGAAACCCAAAGG	.	95	23	222	0	.	0	0	0	0	0
IRF2BP2	359948	hgsc.bcm.edu	37	1	234744413	234744413	+	Silent	SNP	C	C	A	rs4636	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	IRF2BP2-90	NM_182972	exon1	c.G828T	p.A276A	CCCGGCCGCGGTG	.	12	11	0	0	C|0.714;A|0.286	10	0	10	0	0
ANKRD16	54522	hgsc.bcm.edu	37	10	5931230	5931230	+	Missense_Mutation	SNP	C	C	T	rs3750659	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	ANKRD16-90	NM_001009943	exon1	c.G88A	p.G30R	AGCCCCCGGCCGC	.	10	8	1	0	C|0.938;T|0.062	0	0	0	0	0
RPP38	10557	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	15145497	15145497	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	RPP38-91	NM_001265601	exon2	c.G184T	p.D62Y	ATTGAAGATAAGA	.	112	39	85	0	.	11	8	3	0	0
DDX50	79009	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	10	70672928	70672928	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	DDX50-91	NM_024045	exon5	c.T650A	p.L217X	TTGTTTTGGCTCC	.	175	9	134	0	.	0	0	0	0	0
CNNM1	26507	broad.mit.edu	37	10	101124187	101124187	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	CNNM1-68	NM_020348	exon5	c.T2042G	p.V681G	TGGAGGTGGAGGT	.	41	13	35	7	.	0	0	0	0	0
PDZD7	79955	hgsc.bcm.edu;bcgsc.ca;mdanderson.org	37	10	102775566	102775566	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	PDZD7-136	NM_001195263	exon11	c.C1576T	p.Q526X	TCTCCTGGTCTGC	.	146	58	159	0	.	0	0	0	0	0
EPS8L2	64787	broad.mit.edu	37	11	726471	726471	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	EPS8L2-91	NM_022772	exon19	c.G1921T	p.A641S	GCCAAGGCCTTCA	.	44	8	54	2	.	0	0	0	0	0
MUC6	4588	bcgsc.ca	37	11	1017249	1017249	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	MUC6-23	NM_005961	exon31	c.G5552A	p.S1851N	TGAGTACTTGGAG	.	929	52	1494	36	.	0	0	0	0	0
OR52B6	340980	bcgsc.ca	37	11	5602438	5602438	+	Missense_Mutation	SNP	T	T	A	rs2341432	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	OR52B6-69	NM_001005162	exon1	c.T332A	p.L111H	ATAGCCTCATTTC	.	162	7	225	0	T|0.358;A|0.642	0	0	0	0	0
PCNXL3	399909	bcgsc.ca	37	11	65387378	65387378	+	Silent	SNP	T	T	A	rs61744384	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	PCNXL3-46	NM_032223	exon8	c.T1983A	p.A661A	GGGTGCTGTGCAC	.	76	4	116	1	T|0.604;A|0.396	0	0	0	0	0
GAL3ST3	89792	hgsc.bcm.edu	37	11	65810209	65810209	+	Silent	SNP	C	C	T	rs61895584	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	GAL3ST3-91	NM_033036	exon3	c.G1065A	p.P355P	CTGCCACGGCTGC	.	5	4	0	0	C|0.233;T|0.767	0	0	0	0	0
KLHL42	57542	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	27950800	27950800	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	.	NM_020782	exon3	c.C1219T	p.R407C	CCCAACCGCAGGA	.	216	75	193	0	.	11	7	4	0	0
LARP4	113251	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	50822742	50822742	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	LARP4-91	NM_001170808	exon3	c.T191C	p.I64T	AAGATATATGTAA	.	35	14	38	0	.	1	0	1	0	0
MARS	4141	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	57908595	57908595	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	MARS-654	NM_004990	exon16	c.T2060G	p.L687R	TCACCCTGGAGCT	.	102	32	121	0	.	43	27	16	0	0
NCOR2	9612	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	124904549	124904549	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	NCOR2-229	NM_006312	exon15	c.A1436G	p.Y479C	CTCTTATAGTTCT	.	67	32	98	0	.	5	3	2	0	0
POLE	5426	bcgsc.ca	37	12	133219831	133219831	+	Silent	SNP	T	T	C	rs5744944	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	POLE-233	NM_006231	exon35	c.A4530G	p.A1510A	GACGGATGCCCTG	.	112	7	118	1	T|0.448;C|0.552	2	2	0	0	0
OLFM4	10562	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	13	53603040	53603040	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	OLFM4-69	NM_006418	exon1	c.G69A	p.G23G	TTTGGGGGATGTG	.	42	31	57	0	.	0	0	0	0	0
TMTC4	84899	bcgsc.ca	37	13	101287404	101287404	+	Silent	SNP	G	G	A	rs2297943	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	TMTC4-155	NM_032813	exon11	c.C1248T	p.P416P	ACTCGCGGGGAGA	.	96	6	116	0	G|0.737;A|0.263	3	3	0	0	0
OR4N2	390429	bcgsc.ca	37	14	20296519	20296519	+	Silent	SNP	G	G	A	rs201350516		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	OR4N2-71	NM_001004723	exon1	c.G912A	p.K304K	TAATAAGCACATA	.	42	8	61	2	G|0.999;A|0.001	0	0	0	0	0
DNAAF2	55172	hgsc.bcm.edu	37	14	50100683	50100683	+	Silent	SNP	C	C	G	rs2985686	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	.	NM_018139	exon1	c.G1185C	p.A395A	GTCCTCCGCGCGA	.	5	5	0	0	C|0.569;G|0.431	0	0	0	0	0
PLEKHH1	57475	bcgsc.ca	37	14	68041061	68041061	+	Missense_Mutation	SNP	G	G	A	rs61534804	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	PLEKHH1-22	NM_020715	exon14	c.G2029A	p.G677R	GCCACCGGGCCTC	.	102	5	130	1	G|0.897;A|0.103	5	5	0	0	0
CATSPERB	79820	hgsc.bcm.edu;bcgsc.ca	37	14	92126304	92126304	+	Missense_Mutation	SNP	C	C	T	rs147058492	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	CATSPERB-138	NM_024764	exon15	c.G1309A	p.G437S	TGTTGCCGCCATC	.	55	4	81	0	C|0.999;T|0.001	0	0	0	0	0
HHIPL1	84439	hgsc.bcm.edu	37	14	100141689	100141689	+	Missense_Mutation	SNP	T	T	C	rs7158073	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	HHIPL1-70	NM_001127258	exon9	c.T2075C	p.V692A	TGTTCGTGGGCGG	.	20	16	0	0	T|0.478;C|0.522	0	0	0	0	0
PDIA2	64714	broad.mit.edu	37	16	334557	334557	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	PDIA2-91	NM_006849	exon2	c.C370T	p.R124C	TTCTTCCGCAATG	.	149	4	151	0	.	0	0	0	0	0
RABEP2	79874	broad.mit.edu	37	16	28922226	28922226	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	RABEP2-137	NM_024816	exon7	c.C1072T	p.R358W	GCACCCGCTCCTG	.	89	4	75	0	.	59	56	3	0	0
ZFPM1	161882	hgsc.bcm.edu	37	16	88599697	88599705	+	In_Frame_Del	DEL	AGCCTCTGG	AGCCTCTGG	-	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	AGCCTCTGG	AGCCTCTGG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	ZFPM1-90	NM_153813	exon10	c.1331_1339del	p.444_447del	GAGCGGAGCCTCT	.	24	0	3	0	.	0	0	0	0	0
P2RX5	5026	broad.mit.edu	37	17	3592842	3592842	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	P2RX5-22	NM_002561	exon7	c.C697T	p.R233X	CCAGTCGGAAGAT	.	143	6	243	0	.	0	0	0	0	0
GLTPD2	388323	hgsc.bcm.edu	37	17	4693342	4693342	+	Missense_Mutation	SNP	C	C	A	rs35910358		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	GLTPD2-68	NM_001014985	exon4	c.C627A	p.D209E	CCCGGACGCGGGC	.	5	5	0	0	C|0.015;A|0.985	0	0	0	0	0
KDM6B	23135	broad.mit.edu	37	17	7751859	7751861	+	In_Frame_Del	DEL	CAC	CAC	-	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	KDM6B-205	NM_001080424	exon11	c.2253_2255del	p.751_752del	CGCCGTCACCACC	.	9	3	24	0	.	0	0	0	0	0
HES7	84667	bcgsc.ca	37	17	8026364	8026364	+	Silent	SNP	C	C	T	rs61731639	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	HES7-658	NM_001165967	exon2	c.G123A	p.E41E	GGTCCGCTCCAGC	.	148	7	283	2	C|0.854;T|0.146	0	0	0	0	0
NF1	4763	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	29533326	29533326	+	Silent	SNP	T	T	C	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	NF1-3353	NM_001128147	exon12	c.T1329C	p.F443F	TATGTTTGGTGAA	.	189	106	222	0	.	4	0	4	0	0
RARA	5914	bcgsc.ca	37	17	38508263	38508287	+	Frame_Shift_Del	DEL	GTGCGCAAAGCGCACCAGGAAACCT	GTGCGCAAAGCGCACCAGGAAACCT	-	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	GTGCGCAAAGCGCACCAGGAAACCT	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	RARA-1083	NM_000964	exon5	c.571_595del	p.191_199del	GAGAAGGTGCGCA	.	19	5	73	0	.	0	0	0	0	0
KRT39	390792	bcgsc.ca	37	17	39116728	39116728	+	Missense_Mutation	SNP	G	G	A	rs17843021	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	.	NM_213656	exon6	c.C1022T	p.T341M	GTCTCCGTTAGGA	.	98	5	121	0	G|0.868;A|0.132	0	0	0	0	0
ASB16	92591	bcgsc.ca	37	17	42248346	42248346	+	Missense_Mutation	SNP	A	A	T	rs7218599	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	ASB16-227	NM_080863	exon1	c.A189T	p.Q63H	CCACCAAGCCCTC	.	132	5	201	1	A|0.093;T|0.907	0	0	0	0	0
CDC27	996	hgsc.bcm.edu	37	17	45234367	45234367	+	Missense_Mutation	SNP	A	A	T	rs200148949		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	CDC27-291	NM_001114091	exon7	c.T754A	p.S252T	ATATGGAAGTTCC	.	50	10	37	0	.	1	1	0	0	0
CDK5RAP3	80279	ucsc.edu	37	17	46053334	46053334	+	Silent	SNP	A	A	G	rs202125432	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	CDK5RAP3-226	NM_176096	exon8	c.A753G	p.E251E	GGTGGAACGACCC	.	112	13	115	4	A|0.949;G|0.051	55	55	0	0	0
FOXJ1	2302	hgsc.bcm.edu	37	17	74133974	74133974	+	Silent	SNP	C	C	T	rs894542	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	FOXJ1-227	NM_001454	exon3	c.G726A	p.T242T	ATTCACCGTCAGC	.	9	8	1	0	C|0.925;T|0.075	0	0	0	0	0
SYT4	6860	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	40854213	40854213	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	SYT4-132	NM_020783	exon2	c.G181A	p.D61N	AAATATCAACTCC	.	64	15	46	0	.	0	0	0	0	0
MEX3C	51320	hgsc.bcm.edu	37	18	48723146	48723154	+	In_Frame_Del	DEL	GCCGCCGCG	GCCGCCGCG	-	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	GCCGCCGCG	GCCGCCGCG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	MEX3C-659	NM_016626	exon1	c.537_545del	p.179_182del	GCCGCCGCCGCCG	.	20	12	0	0	.	0	0	0	0	0
ANKRD24	170961	hgsc.bcm.edu	37	19	4217956	4217956	+	Silent	SNP	A	A	G	rs6510794	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	ANKRD24-68	NM_133475	exon18	c.A2799G	p.A933A	CCGGGCAGCCAGT	.	11	4	0	0	A|0.541;G|0.459	1	1	0	0	0
MUC16	94025	broad.mit.edu;bcgsc.ca	37	19	9049512	9049512	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	MUC16-566	NM_024690	exon5	c.G32119C	p.D10707H	TGGCATCTGATTC	.	251	7	195	0	.	0	0	0	0	0
MAP1S	55201	hgsc.bcm.edu	37	19	17837425	17837425	+	Missense_Mutation	SNP	C	C	G	rs17710707	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	MAP1S-90	NM_018174	exon5	c.C1232G	p.S411C	TGGCCTCTGTGTG	.	39	15	3	0	C|0.883;G|0.117	2	2	0	0	0
FCHO1	23149	bcgsc.ca	37	19	17885270	17885270	+	Silent	SNP	A	A	G	rs2287859	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	FCHO1-90	NM_001161358	exon12	c.A903G	p.P301P	GGAGCCAGAGCCA	.	118	6	156	0	A|0.495;G|0.505	0	0	0	0	0
FBXO17	115290	hgsc.bcm.edu	37	19	39440918	39440918	+	Silent	SNP	T	T	C	rs2304117	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	FBXO17-226	NM_148169	exon2	c.A69G	p.P23P	CAGGGATGGGTCC	.	22	6	3	0	T|0.545;C|0.455	2	0	2	0	0
MYBPC2	4606	bcgsc.ca	37	19	50957397	50957397	+	Missense_Mutation	SNP	G	G	A	rs25665	bycluster;byfrequency;bysubmitter;by1000genomes	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	MYBPC2-67	NM_004533	exon17	c.G1870A	p.V624I	AACCCCGTCGGCG	.	327	8	311	1	G|0.772;A|0.228	0	0	0	0	0
ZNF160	90338	bcgsc.ca	37	19	53572917	53572917	+	Silent	SNP	G	G	A	rs10407463	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	ZNF160-90	NM_001102603	exon7	c.C870T	p.C290C	TTTGCCGCACTCA	.	189	8	152	0	G|0.843;A|0.157	3	3	0	0	0
LILRB2	10288	bcgsc.ca	37	19	54782919	54782919	+	Missense_Mutation	SNP	C	C	T	rs386056	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	LILRB2-91	NM_005874	exon6	c.G703A	p.V235M	GGGCCACGACAGG	.	411	11	476	6	C|0.787;T|0.213	2	2	0	0	0
ZNF787	126208	hgsc.bcm.edu	37	19	56599438	56599440	+	In_Frame_Del	DEL	TCG	TCG	-	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	TCG	TCG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	ZNF787-69	NM_001002836	exon3	c.1101_1103del	p.367_368del	GCGGCCTCGTCGT	.	19	18	2	2	.	0	0	0	0	0
ZNF814	730051	ucsc.edu	37	19	58384445	58384445	+	Silent	SNP	A	A	G	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	.	NM_001144989	exon3	c.T2313C	p.P771P	CTCATAAGGCTTT	.	82	2	63	0	.	7	6	1	0	0
SIX3	6496	hgsc.bcm.edu	37	2	45171842	45171842	+	Silent	SNP	A	A	G	rs62840660	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	SIX3-90	NM_005413	exon2	c.A942G	p.A314A	GCGCGCAGACACC	.	8	5	1	0	A|0.059;G|0.941	0	0	0	0	0
STON1	11037	bcgsc.ca	37	2	48809593	48809593	+	Missense_Mutation	SNP	G	G	T	rs3792234	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	STON1-91	NM_001198595	exon3	c.G1821T	p.Q607H	TTTACAGGAACTT	.	143	6	159	0	G|0.570;T|0.430	0	0	0	0	0
ASTL	431705	bcgsc.ca	37	2	96795857	96795857	+	Missense_Mutation	SNP	T	T	C	rs749458	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	ASTL-90	NM_001002036	exon7	c.A665G	p.Q222R	CTGCTCTGAGACT	.	153	6	224	3	T|0.132;C|0.868	0	0	0	0	0
SOWAHC	65124	hgsc.bcm.edu	37	2	110372192	110372192	+	Silent	SNP	A	A	G	rs6594048		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	.	NM_023016	exon1	c.A126G	p.L42L	CGCCCTAGGCGGC	.	22	22	0	0	A|0.029;G|0.971	0	0	0	0	0
UGGT1	56886	bcgsc.ca	37	2	128934400	128934400	+	Silent	SNP	T	T	C	rs2290111	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	UGGT1-91	NM_020120	exon32	c.T3552C	p.T1184T	TGGCACTGATTCT	.	154	7	211	2	T|0.323;C|0.677	0	0	0	0	0
NCKAP5	344148	ucsc.edu;bcgsc.ca	37	2	133541575	133541575	+	Missense_Mutation	SNP	C	C	T	rs12611515	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	.	NM_207363	exon14	c.G2809A	p.V937I	GGGAGACGGACCT	.	32	4	27	0	C|0.618;T|0.382	0	0	0	0	0
NEB	4703	bcgsc.ca	37	2	152499355	152499355	+	Missense_Mutation	SNP	T	T	C	rs76767949	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	NEB-145	NM_004543	exon59	c.A8189G	p.D2730G	GTTTTATCTTTAT	.	68	5	48	0	T|0.974;C|0.026	0	0	0	0	0
PGAP1	80055	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	197707448	197707448	+	Nonsense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	PGAP1-93	NM_024989	exon26	c.C2627G	p.S876X	TACCTTGATTTTA	.	152	99	203	0	.	0	0	0	0	0
ALPPL2	251	hgsc.bcm.edu	37	2	233274476	233274476	+	Missense_Mutation	SNP	G	G	C	rs61730278	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	ALPPL2-91	NM_031313	exon11	c.G1493C	p.R498P	CGCCCCGCGCCGG	.	23	21	0	0	G|0.946;C|0.054	0	0	0	0	0
ANGPT4	51378	bcgsc.ca	37	20	854940	854940	+	Silent	SNP	T	T	C	rs944110	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	ANGPT4-92	NM_015985	exon8	c.A1338G	p.Q446Q	CATCACTTGGGCA	.	286	8	271	0	T|0.549;C|0.451	0	0	0	0	0
LRRN4	164312	hgsc.bcm.edu	37	20	6033025	6033025	+	Missense_Mutation	SNP	T	T	C	rs1884643	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	LRRN4-93	NM_152611	exon2	c.A421G	p.T141A	GCCCGGTGCACGG	.	5	5	0	0	T|0.614;C|0.386	0	0	0	0	0
FRG1B	284802	bcgsc.ca	37	20	29623219	29623219	+	RNA	SNP	A	A	G	rs34726194		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	FRG1B-22	.	.	.	.	TCGACAATGGTCT	.	930	26	922	18	.	35	34	0	0	1
FRG1B	284802	bcgsc.ca	37	20	29628225	29628225	+	RNA	SNP	A	A	G	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	FRG1B-22	NR_003579	exon5	c.529-2A>G	.	TCACTTAGGGGAA	.	1066	28	988	16	.	0	0	0	0	0
MYLK2	85366	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	30414412	30414412	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	MYLK2-760	NM_033118	exon7	c.T977C	p.M326T	AGGAAATGGTGTT	.	163	59	170	0	.	0	0	0	0	0
DNTTIP1	116092	hgsc.bcm.edu	37	20	44420682	44420682	+	Silent	SNP	T	T	C	rs2664591	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	DNTTIP1-91	NM_052951	exon1	c.T39C	p.P13P	GGGACCTAGCGGG	.	10	7	2	0	T|0.311;C|0.689	0	0	0	0	0
MMP9	4318	broad.mit.edu;bcgsc.ca	37	20	44641917	44641917	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	MMP9-652	NM_004994	exon9	c.C1354T	p.R452W	GAGCCACGGCCTC	.	88	5	90	0	.	0	0	0	0	0
CASS4	57091	bcgsc.ca	37	20	55033420	55033420	+	Missense_Mutation	SNP	C	C	T	rs35031530	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	CASS4-25	NM_020356	exon6	c.C1978T	p.P660S	CCTCAGCCTTCGA	.	107	5	100	0	C|0.905;T|0.095	1	1	0	0	0
PRODH	5625	bcgsc.ca	37	22	18912678	18912678	+	Missense_Mutation	SNP	A	A	G	rs4819756	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	PRODH-289	NM_016335	exon5	c.T553C	p.W185R	AGGCCCAGTGGGC	.	161	6	232	1	A|0.284;G|0.716	0	0	0	0	0
MMP11	4320	bcgsc.ca	37	22	24124623	24124623	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	MMP11-291	NM_005940	exon7	c.G1286T	p.W429L	CTGACTGGAGAGG	.	90	4	125	0	.	8	8	0	0	0
BPIFC	254240	bcgsc.ca	37	22	32810378	32810378	+	Missense_Mutation	SNP	T	T	G	rs35856742	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	.	NM_174932	exon15	c.A1436C	p.E479A	GATGTTTCATACT	.	173	6	192	1	T|0.936;G|0.064	0	0	0	0	0
PKDREJ	10343	bcgsc.ca	37	22	46656246	46656246	+	Missense_Mutation	SNP	T	T	G	rs7291444	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	PKDREJ-156	NM_006071	exon1	c.A2974C	p.T992P	GCACTGTGCTGTC	.	191	7	267	3	A|0.001;G|0.248;T|0.751	0	0	0	0	0
C3orf17	25871	ucsc.edu	37	3	112730187	112730187	+	Silent	SNP	T	T	C	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	C3orf17-90	NM_015412	exon6	c.A618G	p.Q206Q	GACCTCTTGAAGC	.	28	4	30	0	.	3	3	0	0	0
EVC	2121	bcgsc.ca	37	4	5749904	5749904	+	Silent	SNP	T	T	C	rs4688963	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	EVC-92	NM_153717	exon8	c.T969C	p.N323N	GGCAAATATCCAG	.	127	6	122	0	T|0.559;C|0.441	0	0	0	0	0
EVC	2121	bcgsc.ca	37	4	5795412	5795412	+	Silent	SNP	C	C	T	rs11737221	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	EVC-92	NM_153717	exon13	c.C1854T	p.G618G	CCGCGGCGTCTTG	.	167	9	134	1	C|0.742;T|0.258	0	0	0	0	0
RBM47	54502	hgsc.bcm.edu	37	4	40440854	40440854	+	Silent	SNP	G	G	C	rs1052153	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	RBM47-25	NM_001098634	exon4	c.C57G	p.S19S	CTTGGCGGAGGAC	.	10	5	0	0	G|0.794;C|0.206	1	1	0	0	0
AREG	374	broad.mit.edu;bcgsc.ca	37	4	75482066	75482066	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	AREG-946	NM_001657	exon2	c.C122T	p.S41F	CATTTTCTGGGGA	.	976	90	823	0	.	0	0	0	0	0
SHROOM3	57619	hgsc.bcm.edu	37	4	77662248	77662248	+	Silent	SNP	G	G	A	rs60216375	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	SHROOM3-93	NM_020859	exon5	c.G2922A	p.S974S	GGCGTCGGCCTCC	.	8	8	0	0	G|0.531;A|0.469	0	0	0	0	0
TKTL2	84076	broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	164394479	164394479	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	TKTL2-95	NM_032136	exon1	c.G408A	p.M136I	ATAAGCCATTCCA	.	155	56	109	2	.	0	0	0	0	0
TENM3	55714	broad.mit.edu;bcgsc.ca	37	4	183651430	183651430	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	.	NM_001080477	exon14	c.A2663G	p.H888R	TTTTCCATTACCC	.	183	8	119	0	.	0	0	0	0	0
TRIP13	9319	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	912038	912038	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	TRIP13-90	NM_004237	exon10	c.A947G	p.K316R	ACATCAAGCAGTA	.	210	70	143	0	.	2	2	0	0	0
PAPD7	11044	bcgsc.ca	37	5	6746484	6746484	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	PAPD7-69	NM_001171805	exon7	c.C653A	p.A218D	TGAAAGCCATGAC	.	53	4	51	0	.	0	0	0	0	0
NLN	57486	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	65105961	65105961	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	NLN-90	NM_020726	exon11	c.C1812G	p.C604W	ATACTGCTCAGAA	.	109	18	85	0	.	0	0	0	0	0
RAD17	5884	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	68684968	68684968	+	Silent	SNP	A	A	T	rs140360093		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	RAD17-205	NM_133339	exon9	c.A1035T	p.S345S	TTCTTCAAAAGGT	.	49	8	48	0	A|1.000;T|0.000	0	0	0	0	0
CMYA5	202333	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	79029380	79029380	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	CMYA5-77	NM_153610	exon2	c.G4792A	p.V1598I	GTGGAGGTATCTT	.	140	37	78	0	.	0	0	0	0	0
PCDHB7	56129	broad.mit.edu	37	5	140553994	140553994	+	Silent	SNP	G	G	T	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	PCDHB7-95	NM_018940	exon1	c.G1578T	p.A526A	GCAGGCGTTCGAG	.	381	17	162	1	.	9	9	0	0	0
ARL10	285598	hgsc.bcm.edu	37	5	175792605	175792605	+	Silent	SNP	G	G	C	rs2303667		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	ARL10-91	NM_173664	exon1	c.G39C	p.L13L	GGCGCTGGGCGGC	.	13	13	0	0	G|0.585;C|0.415	0	0	0	0	0
SLC35B3	51000	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	8417697	8417697	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	SLC35B3-90	NM_001142540	exon8	c.T811C	p.Y271H	AAATGTATACAAA	.	162	87	151	0	.	5	0	5	0	0
MLN	4295	bcgsc.ca	37	6	33768897	33768897	+	Missense_Mutation	SNP	A	A	G	rs2281820	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	MLN-90	NM_002418	exon2	c.T44C	p.V15A	GCAGCTACATGCA	.	213	9	313	5	A|0.403;G|0.597	0	0	0	0	0
KCNQ5	56479	hgsc.bcm.edu	37	6	73332040	73332040	+	Silent	SNP	C	C	G	rs3734212	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	KCNQ5-158	NM_001160132	exon1	c.C123G	p.S41S	GGAGTCCGGCCGG	.	5	5	0	0	C|0.505;G|0.495	0	0	0	0	0
PHACTR2	9749	bcgsc.ca	37	6	144081768	144081768	+	Silent	SNP	C	C	A	rs2073215	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	PHACTR2-92	NM_001100164	exon5	c.C685A	p.R229R	ACGACCCGAGAGG	.	53	4	35	0	C|0.799;A|0.201	0	0	0	0	0
RPS6KA2	6196	ucsc.edu	37	6	166826304	166826304	+	Silent	SNP	T	T	C	rs760670	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	RPS6KA2-1405	NM_001006932	exon22	c.A2172G	p.S724S	GTTGGATGACAGC	.	44	4	67	2	T|0.240;C|0.760	1	1	0	0	0
USP42	84132	hgsc.bcm.edu	37	7	6193521	6193521	+	Missense_Mutation	SNP	G	G	C	rs61729726	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	USP42-659	NM_032172	exon15	c.G2336C	p.R779P	CGCCCCGCGATCC	.	20	7	2	0	G|0.456;C|0.544	0	0	0	0	0
GLI3	2737	hgsc.bcm.edu	37	7	42005678	42005678	+	Missense_Mutation	SNP	G	G	A	rs929387	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	GLI3-1149	NM_000168	exon15	c.C2993T	p.P998L	TGGCCCGGCGCAT	.	11	11	0	0	G|0.565;A|0.435	0	0	0	0	0
LAMB4	22798	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	107677982	107677982	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	LAMB4-140	NM_007356	exon30	c.C4530G	p.H1510Q	TGGTAGGTGAATG	.	226	19	211	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-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	.	NM_194284	exon1	c.G628A	p.V210M	ATCCAAGTGGAGT	.	15	6	6	0	G|0.907;A|0.093	0	0	0	0	0
KIAA1967	57805	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	22475230	22475230	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	KIAA1967-92	NM_021174	exon16	c.C2012T	p.S671L	AGGATTCGGAGGT	.	181	66	173	0	.	55	32	23	0	0
STMN2	11075	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	8	80553660	80553660	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	STMN2-515	NM_007029	exon3	c.G163C	p.E55Q	GCTTTTGAGCTGA	.	90	10	59	0	.	0	0	0	0	0
E2F5	1875	hgsc.bcm.edu	37	8	86089787	86089787	+	Silent	SNP	C	C	G	rs12926	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	E2F5-415	NM_001083588	exon1	c.C132G	p.A44A	GGGCGCCGGGGGC	.	6	6	0	0	C|0.434;G|0.566	0	0	0	0	0
TMEM74	157753	broad.mit.edu;bcgsc.ca	37	8	109796433	109796433	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	TMEM74-228	NM_153015	exon2	c.G895C	p.D299H	GCGCATCTTCCTC	.	178	7	176	0	.	0	0	0	0	0
GLI4	2738	hgsc.bcm.edu	37	8	144358302	144358302	+	Silent	SNP	C	C	T	rs1056146		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	GLI4-91	NM_138465	exon4	c.C459T	p.A153A	AGCGGCCGGGCCC	.	15	7	0	0	C|0.723;T|0.277	1	0	1	0	0
SCRIB	23513	hgsc.bcm.edu	37	8	144874477	144874477	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	SCRIB-228	NM_015356	exon32	c.C4427T	p.P1476L	GGCTCCGGACTCT	.	16	6	0	0	.	32	18	14	0	0
PLEC	5339	hgsc.bcm.edu	37	8	144998169	144998169	+	Silent	SNP	C	C	T	rs1140522	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	PLEC-141	NM_201380	exon31	c.G6339A	p.A2113A	CTCCGCCGCCAGC	.	22	22	0	0	C|0.740;T|0.260	6	0	6	0	0
PLEC	5339	hgsc.bcm.edu	37	8	145001588	145001588	+	Missense_Mutation	SNP	C	C	T	rs11136334	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	PLEC-141	NM_201380	exon27	c.G4157A	p.R1386Q	TCCTGCCGCAGCT	.	33	33	0	0	C|0.707;T|0.293	0	0	0	0	0
BNC2	54796	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	16418993	16418993	+	Silent	SNP	T	T	A	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	BNC2-92	NM_017637	exon7	c.A3294T	p.V1098V	CTAATCTACTGAA	.	115	72	174	0	.	0	0	0	0	0
KIAA0368	23392	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	114128569	114128569	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	KIAA0368-68	NM_001080398	exon49	c.C5792A	p.A1931D	GCCAAAGCCTCAG	.	105	60	136	0	.	70	20	50	0	0
WDR34	89891	hgsc.bcm.edu	37	9	131418828	131418828	+	Missense_Mutation	SNP	A	A	C	rs4837292		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	WDR34-92	NM_052844	exon1	c.T178G	p.W60G	TCTCCCAGCGGAT	.	5	5	0	0	A|0.006;C|0.994	0	0	0	0	0
SUPT20HL1	100130302	bcgsc.ca;mdanderson.org	37	X	24382453	24382453	+	Missense_Mutation	SNP	G	G	C	rs112697166		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	.	NM_001136234	exon1	c.G1576C	p.A526P	GCTGCTGCTGCTC	.	119	49	111	1	G|0.500;C|0.500	0	0	0	0	0
DCAF8L2	347442	hgsc.bcm.edu	37	X	27765408	27765408	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	DCAF8L2-42	NM_001136533	exon1	c.G396A	p.E132E	GGAGGAGGAGGAG	.	22	4	24	0	.	1	1	0	0	0
FAM155B	27112	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	X	68725226	68725226	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	FAM155B-131	NM_015686	exon1	c.G101C	p.C34S	AACCTTGCGCCGA	.	55	44	30	0	.	0	0	0	0	0
SOWAHD	347454	hgsc.bcm.edu	37	X	118892888	118892888	+	Silent	SNP	G	G	C	rs2782222	byfrequency	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	.	NM_001105576	exon1	c.G258C	p.A86A	TCCTGCGGGGTGG	.	4	4	0	0	G|0.401;C|0.599	1	0	1	0	0
UTP14A	10813	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	X	129059084	129059084	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	UTP14A-132	NM_006649	exon12	c.G1662A	p.K554K	GAAAAAGAAGGAG	.	70	5	63	0	.	12	12	0	0	0
KIAA1211	57482	broad.mit.edu	37	4	57180576	57180577	+	In_Frame_Ins	INS	-	-	GGAGCGGAGGGAGCGGAG	rs138358443	by1000genomes	TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	KIAA1211-70	NM_020722	exon8	c.908_909insGGAGCGGAGGGAGCGGAG	p.A303delinsAERRERR	AGGACGCGGAGCG	.	51	28	26	0	.	0	0	0	0	0
PODXL	5420	hgsc.bcm.edu	37	7	131241029	131241030	+	In_Frame_Ins	INS	-	-	GGCGAC	rs11277659		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	PODXL-136	NM_005397	exon1	c.90_91insGTCGCC	p.P30delinsPSP	CTGGGAGGGCGAC	.	50	6	2	0	.	0	0	0	0	0
ARHGEF26	26084	bcgsc.ca	37	3	153839959	153839960	+	Missense_Mutation	DNP	CT	CT	TC	novel		TCGA-OR-A5JK-01A-11D-A29I-10	TCGA-OR-A5JK-10A-01D-A29L-10	CT	CT	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	30ef35e3-dbfe-4e8d-a398-fa59ec891031	9f7d2d3c-956c-4894-ba05-6349fc18bec2	.	ARHGEF26-47	NM_001251962	exon2	c.T179C	p.L60S	CGCTCCTCGCAGC	.	194	0	262	0	T|0.139;C|0.861	0	0	0	0	0