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	Trna_tot	Trna_ref	Trna_var	Trna_alt1	Trna_alt2
CROCCP2	84809	broad.mit.edu	37	1	16953247	16953248	+	RNA	DEL	CT	CT	-	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
MST1P2	11209	bcgsc.ca	37	1	16976670	16976670	+	RNA	SNP	C	C	T	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	1	0	1	0	0
ESPNP	284729	bcgsc.ca	37	1	17023403	17023403	+	RNA	SNP	G	G	A	rs10907267	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
UBR4	23352	bcgsc.ca	37	1	19447843	19447843	+	Silent	SNP	C	C	G	rs1044010	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
RSPO1	284654	bcgsc.ca	37	1	38079517	38079517	+	Missense_Mutation	SNP	T	T	G	rs36043533	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
ZFYVE9	9372	bcgsc.ca	37	1	52761610	52761610	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
DHCR24	1718	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	55337052	55337052	+	Missense_Mutation	SNP	C	C	G	rs181555625	alternate_allele	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	8	8	0	0	0
SPRR3	6707	ucsc.edu	37	1	152975715	152975715	+	Silent	SNP	C	C	T	rs63405761	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	1	1	0	0	0
SPRR3	6707	ucsc.edu	37	1	152975739	152975739	+	Silent	SNP	T	T	A	rs17851565	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
FCRL2	79368	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	157740445	157740445	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
GJC2	57165	hgsc.bcm.edu	37	1	228346053	228346053	+	Silent	SNP	C	C	T	rs116557768		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
ECHDC3	79746	hgsc.bcm.edu	37	10	11784633	11784633	+	Missense_Mutation	SNP	C	C	T	rs11558855		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
PTPLA	9200	hgsc.bcm.edu	37	10	17659149	17659149	+	Missense_Mutation	SNP	C	C	G	rs7895850	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
SLC25A16	8034	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	70243288	70243288	+	Silent	SNP	G	G	C	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	1	0	1	0	0
ENTPD1-AS1	0	bcgsc.ca	37	10	97681714	97681714	+	RNA	SNP	T	T	C	rs11594853	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
ACADSB	36	bcgsc.ca	37	10	124800853	124800853	+	Silent	SNP	C	C	T	rs1140591	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
PWWP2B	170394	hgsc.bcm.edu	37	10	134219036	134219036	+	Silent	SNP	G	G	A	rs11817589	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	2	2	0	0	0
PWWP2B	170394	hgsc.bcm.edu	37	10	134219045	134219045	+	Silent	SNP	C	C	T	rs11146364	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	2	2	0	0	0
PHLDA2	7262	broad.mit.edu	37	11	2950513	2950513	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
NTF3	4908	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	5604093	5604093	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
VWF	7450	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	6174404	6174404	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	3	3	0	0	0
KRT72	140807	hgsc.bcm.edu	37	12	52995020	52995020	+	Missense_Mutation	SNP	C	C	T	rs57242225	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
KRT8	3856	broad.mit.edu	37	12	53298675	53298675	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
RNFT2	84900	hgsc.bcm.edu	37	12	117187919	117187919	+	Silent	SNP	C	C	T	rs116754010	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
OR4K5	79317	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	20389141	20389141	+	Missense_Mutation	SNP	A	A	C	rs200386813	alternate_allele	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
HECTD1	25831	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	31647449	31647449	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
ADAM21P1	145241	broad.mit.edu	37	14	70713992	70713992	+	RNA	SNP	C	C	A	rs4902799	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
TTLL5	23093	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	76219245	76219245	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
KIF26A	26153	hgsc.bcm.edu	37	14	104644099	104644099	+	Silent	SNP	T	T	C	rs2497297	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
OR4N4	283694	bcgsc.ca	37	15	22382897	22382897	+	Missense_Mutation	SNP	A	A	G	rs62006710	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
HERC2P9	440248	broad.mit.edu	37	15	28913367	28913367	+	RNA	DEL	T	T	-	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
DISP2	85455	hgsc.bcm.edu	37	15	40660192	40660192	+	Silent	SNP	C	C	T	rs8040755	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
LACTB	114294	hgsc.bcm.edu	37	15	63414083	63414083	+	Missense_Mutation	SNP	A	A	C	rs34317102	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
CHD2	1106	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	93521561	93521561	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
CLEC16A	23274	bcgsc.ca	37	16	11114170	11114170	+	Missense_Mutation	SNP	C	C	T	rs74163614		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
NOMO1	23420	broad.mit.edu;bcgsc.ca;mdanderson.org	37	16	14988885	14988885	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	182	181	1	0	0
MYH11	4629	hgsc.bcm.edu;ucsc.edu	37	16	15809040	15809040	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
IRX3	79191	hgsc.bcm.edu	37	16	54318528	54318528	+	Missense_Mutation	SNP	A	A	G	rs1450355		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
CDT1	81620	bcgsc.ca	37	16	88872511	88872511	+	Silent	SNP	T	T	C	rs510862	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
FLCN	201163	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	17131266	17131266	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
EIF1	10209	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	39847059	39847059	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	1395	734	661	0	0
SERPINB12	89777	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	61223496	61223496	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
CELF5	60680	bcgsc.ca	37	19	3224896	3224896	+	Silent	SNP	G	G	C	rs17852497	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
C3	718	bcgsc.ca	37	19	6677989	6677989	+	Silent	SNP	G	G	A	rs17030	bycluster;byfrequency;by1000genomes	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	504	504	0	0	0
UNC13A	23025	bcgsc.ca	37	19	17741047	17741047	+	Silent	SNP	A	A	G	rs10413821	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
DMKN	93099	hgsc.bcm.edu	37	19	36002386	36002386	+	Missense_Mutation	SNP	C	C	T	rs117522133	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
DMKN	93099	hgsc.bcm.edu	37	19	36002389	36002389	+	Missense_Mutation	SNP	C	C	T	rs142519211	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
SPTBN4	57731	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	41063159	41063159	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
PSG10P	653492	bcgsc.ca	37	19	43352340	43352340	+	RNA	SNP	T	T	G	rs8108570	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
TPRX1	284355	ucsc.edu	37	19	48305646	48305646	+	Missense_Mutation	SNP	G	G	A	rs112842028		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
C2orf71	388939	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	29295883	29295883	+	Silent	SNP	T	T	A	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
GALNT14	79623	broad.mit.edu;bcgsc.ca	37	2	31147655	31147655	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
TMEM247	388946	ucsc.edu;bcgsc.ca	37	2	46707808	46707808	+	Missense_Mutation	SNP	C	C	G	rs74318890		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
SLC5A7	60482	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	2	108627278	108627278	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
IWS1	55677	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	128281317	128281317	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
CXCR2P1	3580	broad.mit.edu	37	2	218924569	218924569	+	RNA	SNP	A	A	G	rs1593782		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
HJURP	55355	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	234750050	234750050	+	Missense_Mutation	SNP	G	G	A	rs148843421	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
ANKMY1	51281	bcgsc.ca	37	2	241465261	241465261	+	Silent	SNP	G	G	A	rs35186665	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
SNED1	25992	hgsc.bcm.edu	37	2	242011084	242011084	+	Missense_Mutation	SNP	T	T	C	rs17440466	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
ZCCHC3	85364	hgsc.bcm.edu	37	20	278515	278515	+	Silent	SNP	T	T	C	rs2223665	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
TRIB3	57761	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	20	368653	368653	+	Splice_Site	SNP	A	A	G	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	4	0	4	0	0
CPXM1	56265	bcgsc.ca	37	20	2776975	2776975	+	Missense_Mutation	SNP	C	C	T	rs41310169	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
FAM182A	284800	broad.mit.edu	37	20	26061818	26061818	+	RNA	SNP	G	G	C	rs112101451		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
FRG1B	284802	bcgsc.ca	37	20	29623182	29623182	+	RNA	SNP	G	G	A	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	2	2	0	0	0
FRG1B	284802	bcgsc.ca	37	20	29632896	29632896	+	RNA	SNP	G	G	C	rs62196367	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	14	7	7	0	0
R3HDML	140902	bcgsc.ca	37	20	42966025	42966025	+	Silent	SNP	T	T	C	rs1884612	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
OCSTAMP	128506	broad.mit.edu	37	20	45174026	45174026	+	Silent	SNP	A	A	C	rs202396	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
CLIC6	54102	hgsc.bcm.edu	37	21	36042579	36042579	+	Missense_Mutation	SNP	C	C	G	rs13049028	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
CLIC6	54102	hgsc.bcm.edu	37	21	36042584	36042584	+	Silent	SNP	G	G	A	rs13049239	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
KRTAP10-7	386675	broad.mit.edu	37	21	46020669	46020670	+	Splice_Site	DEL	AG	AG	-	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
LSS	4047	bcgsc.ca	37	21	47614443	47614443	+	Silent	SNP	A	A	G	rs2254522	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	18	18	0	0	0
CLDN5	7122	hgsc.bcm.edu	37	22	19511953	19511953	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
SCARF2	91179	hgsc.bcm.edu	37	22	20780091	20780091	+	Silent	SNP	C	C	G	rs77189880	bycluster;byfrequency;by1000genomes	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
SCARF2	91179	hgsc.bcm.edu	37	22	20780097	20780097	+	Silent	SNP	G	G	C	rs759609	bycluster;byfrequency;by1000genomes	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
THAP7-AS1	439931	broad.mit.edu	37	22	21363341	21363341	+	RNA	SNP	T	T	C	rs2516541	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
THAP7-AS1	439931	broad.mit.edu;bcgsc.ca	37	22	21363392	21363392	+	RNA	SNP	G	G	A	rs28522842	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
ZDHHC8P1	150244	bcgsc.ca	37	22	23741848	23741848	+	RNA	SNP	T	T	C	rs117550380	byfrequency;by1000genomes	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
SPECC1L	23384	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	24709364	24709364	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
CYP2D7P1	1564	broad.mit.edu	37	22	42536313	42536313	+	RNA	SNP	G	G	A	rs2743456		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	2	2	0	0	0
PDCD6IP	10015	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	33877676	33877676	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	2	2	0	0	0
CTNNB1	1499	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	41266136	41266136	+	Missense_Mutation	SNP	T	T	C	rs121913407	bycluster	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	16	10	6	0	0
GPX1	2876	broad.mit.edu	37	3	49395674	49395679	+	In_Frame_Del	DEL	GCCGCC	GCCGCC	-	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
FAM86JP	100125556	broad.mit.edu	37	3	125637753	125637753	+	RNA	SNP	G	G	A	rs59319586	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	1	1	0	0	0
CNBP	7555	hgsc.bcm.edu	37	3	128889366	128889366	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	50	50	0	0	0
FAM86HP	729375	bcgsc.ca	37	3	129822950	129822950	+	RNA	SNP	A	A	G	rs12495527	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
CPNE4	131034	bcgsc.ca	37	3	131268824	131268824	+	Silent	SNP	T	T	C	rs11915192	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
VWA5B2	90113	hgsc.bcm.edu	37	3	183959508	183959508	+	Silent	SNP	A	A	C	rs28606531	byfrequency;by1000genomes	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
ZNF876P	642280	broad.mit.edu	37	4	247767	247767	+	RNA	DEL	T	T	-	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
IDUA	3425	broad.mit.edu	37	4	996204	996204	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	8	5	3	0	0
CRIPAK	285464	hgsc.bcm.edu	37	4	1388755	1388755	+	Silent	SNP	C	C	G	rs141481663	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	11	3	8	0	0
CRIPAK	285464	hgsc.bcm.edu	37	4	1389070	1389070	+	Silent	SNP	A	A	G	rs151096093	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	8	2	6	0	0
GABRB1	2560	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	47408836	47408836	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
PF4	5196	broad.mit.edu	37	4	74846972	74846972	+	Silent	SNP	G	G	A	rs62313967		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
DSPP	1834	bcgsc.ca	37	4	88537027	88537027	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
DSPP	1834	mdanderson.org	37	4	88537087	88537087	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
DCHS2	54798	broad.mit.edu;bcgsc.ca	37	4	155410822	155410822	+	Silent	SNP	G	G	A	rs4696593	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
HSD17B4	3295	ucsc.edu;bcgsc.ca	37	5	118861713	118861713	+	Missense_Mutation	SNP	A	A	G	rs11205	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
RAD50	10111	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	131927722	131927722	+	Silent	SNP	T	T	C	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
PCDHB5	26167	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	140515569	140515569	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
RANBP17	64901	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	170648797	170648797	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
PPP1R3G	648791	hgsc.bcm.edu	37	6	5086070	5086070	+	Silent	SNP	A	A	G	rs667752		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	1	0	1	0	0
ATXN1	6310	hgsc.bcm.edu	37	6	16327900	16327900	+	Missense_Mutation	SNP	C	C	A	rs200111316		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	1	1	0	0	0
CYP21A2	1589	broad.mit.edu	37	6	31975113	31975113	+	RNA	SNP	G	G	C	rs62402680	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	2552	2546	3	0	3
CYP21A2	1589	broad.mit.edu	37	6	31975151	31975151	+	RNA	SNP	T	T	G	rs41315836	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	2424	4	2417	1	2
HLA-DQB1	3119	bcgsc.ca	37	6	32629129	32629129	+	Missense_Mutation	SNP	T	T	C	rs1130432	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
TMEM151B	441151	hgsc.bcm.edu	37	6	44243154	44243154	+	Silent	SNP	C	C	T	rs12194552	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
UTRN	7402	ucsc.edu	37	6	145051594	145051594	+	Missense_Mutation	SNP	G	G	T	rs4305737	byfrequency;alternate_allele	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
NOM1	64434	hgsc.bcm.edu	37	7	156742501	156742501	+	Missense_Mutation	SNP	C	C	G	rs6969990	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
SAMD12	401474	bcgsc.ca	37	8	119391791	119391791	+	Silent	SNP	T	T	C	rs5020517	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
TSNARE1	203062	bcgsc.ca	37	8	143413136	143413136	+	Missense_Mutation	SNP	C	C	T	rs10435683	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
ZNF696	79943	hgsc.bcm.edu	37	8	144378868	144378868	+	Silent	SNP	A	A	G	rs7386259	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
PLEC	5339	hgsc.bcm.edu	37	8	144990528	144990528	+	Silent	SNP	A	A	G	rs7014582	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	7	6	1	0	0
PLEC	5339	hgsc.bcm.edu	37	8	144999417	144999417	+	Silent	SNP	C	C	T	rs55836855	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
OPLAH	26873	hgsc.bcm.edu	37	8	145107390	145107390	+	Missense_Mutation	SNP	C	C	T	rs185836803		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	13	4	9	0	0
NACC2	138151	hgsc.bcm.edu	37	9	138903545	138903545	+	Silent	SNP	G	G	A	rs79175912		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
GPSM1	26086	broad.mit.edu;bcgsc.ca	37	9	139235606	139235606	+	Missense_Mutation	SNP	G	G	C	rs78403475		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
FBXW5	54461	broad.mit.edu	37	9	139837138	139837138	+	Missense_Mutation	SNP	G	G	A	rs148935719	byfrequency	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
RNR2	6053	broad.mit.edu	37	MT	2593	2593	+	RNA	SNP	G	G	A	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	59608	59393	180	20	15
PCSK1N	27344	hgsc.bcm.edu	37	X	48690749	48690749	+	Silent	SNP	C	C	T	rs11538178		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
SERPINA7	6906	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	105277575	105277575	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
C14orf23	387978	broad.mit.edu	37	14	29261305	29261306	+	RNA	INS	-	-	AAC	rs200251419		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
AMN	81693	hgsc.bcm.edu;broad.mit.edu	37	14	103396993	103396994	+	In_Frame_Ins	INS	-	-	GCCGGG	rs36040113		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
SPIRE2	84501	broad.mit.edu	37	16	89916879	89916880	+	In_Frame_Ins	INS	-	-	GAG	rs146569219		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
ULK2	9706	hgsc.bcm.edu	37	17	19770717	19770718	+	In_Frame_Ins	INS	-	-	CCA	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
KRTAP4-5	85289	hgsc.bcm.edu	37	17	39305774	39305775	+	In_Frame_Ins	INS	-	-	TGGCAGCAGCTGGGG	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
C21orf58	54058	hgsc.bcm.edu;broad.mit.edu	37	21	47721985	47721986	+	In_Frame_Ins	INS	-	-	TGGTGG	rs71318063	bycluster;by1000genomes;alternate_allele	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
ZNF717	100131827	broad.mit.edu	37	3	75790810	75790811	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
NOTCH1	4851	broad.mit.edu	37	9	139417461	139417462	+	Frame_Shift_Ins	INS	-	-	G	rs146350322	by1000genomes;alternate_allele	TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
C16orf3	750	bcgsc.ca	37	16	90095596	90095597	+	Missense_Mutation	DNP	AT	AT	GC	novel		TCGA-OR-A5L3-01A-11D-A29I-10	TCGA-OR-A5L3-10A-01D-A29L-10	AT	AT	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	20de8d93-d3ca-4127-a242-4b4883523118	4a788687-ee2a-41b7-809d-410076aa453b	0	0	0	0	0
