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	TTotCov	TVarCov	NTotCov	NVarCov	Trna_tot	Trna_ref	Trna_var	Trna_alt1	Trna_alt2
MTOR	2475	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	11184573	11184573	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	71	24	83	0	11	9	2	0	0
BEST4	266675	hgsc.bcm.edu	37	1	45252159	45252159	+	Missense_Mutation	SNP	T	T	C	rs41306591		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	8	3	2	1	0	0	0	0	0
MROH7	374977	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	55118778	55118778	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	148	46	144	0	0	0	0	0	0
TRIM33	51592	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	114948195	114948195	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	243	65	243	0	5	3	2	0	0
OBSCN	84033	hgsc.bcm.edu	37	1	228467538	228467538	+	Silent	SNP	C	C	G	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	29	2	24	0	1	1	0	0	0
RYR2	6262	hgsc.bcm.edu	37	1	237804221	237804221	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	30	2	55	0	0	0	0	0	0
CCDC7	221016	broad.mit.edu	37	10	32854549	32854549	+	Splice_Site	SNP	G	G	T	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	45	3	43	0	0	0	0	0	0
GPRIN2	9721	hgsc.bcm.edu	37	10	46999189	46999190	+	Frame_Shift_Del	DEL	CA	CA	-	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	68	11	65	0	0	0	0	0	0
ZNF488	118738	broad.mit.edu	37	10	48371023	48371023	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	88	5	124	0	0	0	0	0	0
C10orf137	26098	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	127442312	127442312	+	Missense_Mutation	SNP	A	A	G	rs199695348		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	120	42	132	0	6	4	2	0	0
MUC5B	727897	hgsc.bcm.edu	37	11	1268488	1268488	+	Missense_Mutation	SNP	C	C	T	rs200106077		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	112	13	95	2	0	0	0	0	0
TCN1	6947	bcgsc.ca	37	11	59622265	59622265	+	Silent	SNP	A	A	G	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	150	5	94	0	121	121	0	0	0
SLCO2B1	11309	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	74883496	74883496	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	103	30	84	0	10	10	0	0	0
ARHGEF12	23365	broad.mit.edu	37	11	120300474	120300474	+	Silent	SNP	C	C	T	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	103	4	85	0	17	16	1	0	0
GTSF1	121355	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	54857070	54857070	+	Silent	SNP	A	A	G	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	93	27	85	0	0	0	0	0	0
AGAP2	116986	hgsc.bcm.edu	37	12	58120409	58120409	+	Missense_Mutation	SNP	C	C	T	rs199546118		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	7	6	3	0	0	0	0	0	0
NAV3	89795	hgsc.bcm.edu	37	12	78574710	78574710	+	Silent	SNP	A	A	G	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	75	26	38	0	0	0	0	0	0
SHISA2	387914	hgsc.bcm.edu	37	13	26625047	26625047	+	Silent	SNP	G	G	A	rs4770911		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	9	5	3	1	1	0	1	0	0
FRY	10129	bcgsc.ca	37	13	32811616	32811616	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	84	6	86	1	4	4	0	0	0
MIR17HG	407975	ucsc.edu;bcgsc.ca	37	13	92003234	92003234	+	RNA	SNP	T	T	G	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	90	32	75	0	0	0	0	0	0
MYH6	4624	hgsc.bcm.edu;broad.mit.edu	37	14	23859655	23859655	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	43	14	39	0	0	0	0	0	0
COCH	1690	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	31353851	31353851	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	71	18	64	0	0	0	0	0	0
DTD2	112487	hgsc.bcm.edu	37	14	31926584	31926584	+	Missense_Mutation	SNP	G	G	A	rs3087952		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	11	2	11	1	4	2	2	0	0
TUBGCP5	114791	broad.mit.edu;bcgsc.ca	37	15	22872435	22872444	+	Frame_Shift_Del	DEL	AAACTGCCAT	AAACTGCCAT	-	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	AAACTGCCAT	AAACTGCCAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	114	8	116	0	0	0	0	0	0
TRAF7	84231	hgsc.bcm.edu	37	16	2222231	2222231	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	56	3	61	0	26	25	0	0	1
CCDC64B	146439	hgsc.bcm.edu	37	16	3081004	3081004	+	Nonsense_Mutation	SNP	G	G	A	rs199875074		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	12	8	9	2	0	0	0	0	0
TVP23C	201158	ucsc.edu	37	17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	404	64	373	57	14	0	14	0	0
ABCC3	8714	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	48734448	48734448	+	Silent	SNP	C	C	T	rs139452504		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	137	27	118	1	10	8	2	0	0
SPAG9	9043	broad.mit.edu	37	17	49063070	49063071	+	Frame_Shift_Del	DEL	AA	AA	-	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	36	8	35	0	0	0	0	0	0
EPX	8288	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	56281634	56281634	+	Silent	SNP	G	G	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	113	35	123	1	1	0	1	0	0
CCDC57	284001	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	80129603	80129603	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	90	15	79	0	3	3	0	0	0
EPB41L3	23136	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	18	5416056	5416056	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	138	37	137	0	0	0	0	0	0
PRAM1	84106	hgsc.bcm.edu	37	19	8563524	8563524	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	21	2	27	0	5	5	0	0	0
TMEM205	374882	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	11453637	11453637	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	149	48	111	0	226	128	98	0	0
ANO8	57719	hgsc.bcm.edu	37	19	17439378	17439378	+	Missense_Mutation	SNP	G	G	A	rs73511896		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	9	5	3	1	1	1	0	0	0
CACNG8	59283	hgsc.bcm.edu	37	19	54485464	54485464	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	37	2	40	0	0	0	0	0	0
ISOC2	79763	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	55966664	55966664	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	28	5	29	0	33	31	2	0	0
DHRS9	10170	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	2	169938176	169938176	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	134	7	121	0	0	0	0	0	0
CDCA7	83879	bcgsc.ca	37	2	174231883	174231883	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	138	6	115	1	0	0	0	0	0
PGAP1	80055	hgsc.bcm.edu;broad.mit.edu	37	2	197781305	197781305	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	47	9	48	0	0	0	0	0	0
SPAG16	79582	hgsc.bcm.edu	37	2	214204970	214204970	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	39	2	46	0	2	2	0	0	0
DHX35	60625	bcgsc.ca	37	20	37623476	37623476	+	Silent	SNP	C	C	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	170	6	144	0	0	0	0	0	0
PTPRT	11122	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	20	41306544	41306544	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	150	42	124	0	0	0	0	0	0
TMEM189	387521	hgsc.bcm.edu	37	20	48770156	48770156	+	Missense_Mutation	SNP	A	A	C	rs2026757		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	10	7	2	0	0	0	0	0	0
MYT1	4661	broad.mit.edu	37	20	62851191	62851191	+	Silent	SNP	C	C	T	rs117853857		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	19	5	22	0	0	0	0	0	0
SLC9C1	285335	hgsc.bcm.edu	37	3	111983130	111983130	+	Silent	SNP	T	T	C	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	28	2	11	0	0	0	0	0	0
EIF4G1	1981	broad.mit.edu	37	3	184039744	184039746	+	In_Frame_Del	DEL	GAA	GAA	-	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	GAA	GAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	150	9	121	0	0	0	0	0	0
CLCN2	1181	hgsc.bcm.edu	37	3	184075764	184075764	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	100	5	119	0	0	0	0	0	0
POLR2B	5431	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	4	57888371	57888373	+	In_Frame_Del	DEL	AAG	AAG	-	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	AAG	AAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	81	13	62	0	0	0	0	0	0
GLRB	2743	bcgsc.ca	37	4	158060081	158060081	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	64	4	39	0	3	3	0	0	0
ITGA2	3673	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	52366069	52366069	+	Silent	SNP	C	C	G	rs142557473	alternate_allele	TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	114	34	57	0	11	6	5	0	0
CMYA5	202333	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	5	79034426	79034426	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	144	25	110	0	0	0	0	0	0
ADAMTS19	171019	hgsc.bcm.edu	37	5	128797258	128797258	+	Silent	SNP	G	G	C	rs147557427		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	7	4	7	1	0	0	0	0	0
ANKHD1	54882	hgsc.bcm.edu	37	5	139828840	139828840	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	31	2	29	0	10	10	0	0	0
PCDHAC1	56135	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	140307713	140307713	+	Silent	SNP	A	A	G	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	99	22	90	0	0	0	0	0	0
DOCK2	1794	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	169446069	169446069	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	308	74	350	1	3	3	0	0	0
LOC554223	0	broad.mit.edu	37	6	29760353	29760373	+	In_Frame_Del	DEL	GCGGGCGCCGTGGATGGAGCA	GCGGGCGCCGTGGATGGAGCA	-	rs1611210	bycluster	TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	GCGGGCGCCGTGGATGGAGCA	GCGGGCGCCGTGGATGGAGCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	8	3	7	0	0	0	0	0	0
HLA-H	3136	broad.mit.edu	37	6	29857360	29857360	+	RNA	SNP	G	G	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	50	4	50	1	3379	0	3376	1	2
HLA-A	3105	hgsc.bcm.edu	37	6	29910594	29910594	+	Missense_Mutation	SNP	G	G	A	rs199474366		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	56	5	67	0	1765	1761	3	1	0
PKIB	5570	hgsc.bcm.edu	37	6	123022647	123022647	+	Splice_Site	SNP	T	T	C	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	21	2	21	0	0	0	0	0	0
IGFBP3	3486	ucsc.edu	37	7	45956267	45956267	+	Splice_Site	SNP	C	C	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	223	1	232	0	15	15	0	0	0
PKD1L1	168507	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	47944905	47944905	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	174	37	221	0	0	0	0	0	0
ZKSCAN5	23660	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	99129235	99129235	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	85	5	84	0	10	10	0	0	0
VGF	7425	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	100806695	100806695	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	56	15	73	0	0	0	0	0	0
TBXAS1	6916	hgsc.bcm.edu;bcgsc.ca	37	7	139719838	139719838	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	79	4	100	0	16	16	0	0	0
CPA6	57094	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	8	68397000	68397000	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	85	21	74	0	0	0	0	0	0
MROH1	727957	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	8	145267981	145267981	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	118	21	134	0	1	1	0	0	0
WNK2	65268	hgsc.bcm.edu	37	9	96055159	96055159	+	Silent	SNP	C	C	T	rs56125631	bycluster	TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	5	3	10	1	0	0	0	0	0
FLJ44635	0	ucsc.edu	37	X	71379997	71379997	+	Silent	SNP	C	C	G	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	117	1	122	0	4	0	4	0	0
RGAG1	57529	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	X	109695056	109695056	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	661	185	585	0	0	0	0	0	0
RGAG1	57529	bcgsc.ca	37	X	109695057	109695057	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	647	180	579	0	0	0	0	0	0
MBNL3	55796	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	X	131540269	131540269	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	183	62	180	0	0	0	0	0	0
CDR1	1038	hgsc.bcm.edu	37	X	139866440	139866440	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	299	16	145	2	0	0	0	0	0
SLC6A8	6535	broad.mit.edu	37	X	152960547	152960547	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	23	3	35	0	77	77	0	0	0
ATP6AP1	537	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	X	153657422	153657422	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	130	33	137	0	59	59	0	0	0
APOB	338	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	2	21224920	21224921	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	117	33	87	0	0	0	0	0	0
SUPT20HL1	100130302	hgsc.bcm.edu	37	X	24382372	24382373	+	Missense_Mutation	DNP	AT	AT	GC	novel		TCGA-A4-7828-01A-11D-2136-08	TCGA-A4-7828-10A-01D-2136-08	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	89b510b4-b46f-44f1-b973-0e7b01c3afd1	df0c98a4-c394-4d62-ac84-e6893a743883	6	2	10	1	0	0	0	0	0
