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	ref_context	gc_content	t_alt_count	t_ref_count
CYP2C19	1557	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	10	96602618	96602618	+	Missense_Mutation	SNP	G	G	A	rs138142612		TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	GAGATTGAACGTGTCGTTGGC	0.498	22	172
OR52B6	340980	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	5603034	5603034	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	GCTCAATCCCGTTATTTATGG	0.443	74	98
LTBR	4055	hgsc.bcm.edu;broad.mit.edu	37	12	6499942	6499942	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	AGCTACCCCCGAACCTCCATA	0.612	7	154
KRT75	9119	hgsc.bcm.edu;broad.mit.edu	37	12	52822506	52822506	+	Missense_Mutation	SNP	C	C	T	rs140579691	byFrequency	TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	TGTCTGCCTGCGGTGACCTGC	0.547	10	137
HVCN1	84329	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	111099098	111099098	+	Silent	SNP	G	G	C			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	AGACTGGTGTGGGTGGTGGCT	0.622	24	80
HCAR1	27198	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	123214713	123214713	+	Silent	SNP	G	G	A			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	AATCAGCCACGGCCAAATTGA	0.542	21	36
PTPN9	5780	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	75761319	75761319	+	Missense_Mutation	SNP	A	A	C			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	AGTGAGCAGAAGGTACCTGAA	0.512	17	25
IL17C	27189	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	88705399	88705399	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	CTCCTCCCCGGCCTCCTGTTT	0.642	58	257
DSC2	1824	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	18	28650804	28650804	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	ACAGACCAGCGTAAACAGGAT	0.363	16	67
MIDN	90007	hgsc.bcm.edu;broad.mit.edu	37	19	1255053	1255053	+	Silent	SNP	C	C	T			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	TCTCAGGGACCTTCTCTGGTA	0.617	6	106
FCHO1	23149	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	17886277	17886277	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	ATGTCCAGAGGTGGATGAAGA	0.597	25	243
CIC	23152	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	42799051	42799051	+	Missense_Mutation	SNP	G	G	T			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	TTGAAGATCCGTGAGGTGCGC	0.627	64	28
CA11	770	hgsc.bcm.edu;broad.mit.edu	37	19	49143394	49143394	+	Silent	SNP	G	G	A			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	GTTCCGAGCCGGCTCCGTCGC	0.607	6	94
ITLN1	55600	hgsc.bcm.edu;ucsc.edu	37	1	160851055	160851055	+	Silent	SNP	G	G	A	rs61734482	byFrequency	TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	TATTGGGCACGTGCCAGATGC	0.587	36	242
F5	2153	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	169524423	169524423	+	Missense_Mutation	SNP	T	T	C			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	AACTCACTTGTCCATATTCGC	0.468	35	232
CFHR3	10878	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	196749062	196749062	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	GTTACATGTACGGAGAAAGGC	0.473	41	79
MRAP	56246	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	21	33684248	33684248	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	GGGTCCCCTCGTCAGGAGCAA	0.602	35	57
SPTBN1	6711	hgsc.bcm.edu;broad.mit.edu	37	2	54859857	54859857	+	Missense_Mutation	SNP	A	A	G			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	AGCGATGGGAACATCAACTCA	0.507	3	58
SCN3A	6328	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	165948831	165948831	+	Silent	SNP	G	G	C			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	AGTAGTGTCTGAGGGAGACGA	0.438	40	62
IDH1	3417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	ATAAGCATGACGACCTATGAT	0.393	37	53
FGD5	152273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	14862573	14862573	+	Silent	SNP	G	G	A			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	AGAAGAAGACGGAGAACAAAT	0.512	34	40
XIRP1	165904	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	39227360	39227360	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	GGCTCCTCCCGCCCTGGCCCA	0.677	6	47
DDX39B	7919	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	31506618	31506618	+	Silent	SNP	C	C	T			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	TGTGACACATCACCAGTACAG	0.453	11	87
RARS2	57038	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	88229954	88229954	+	Missense_Mutation	SNP	C	C	A			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	GCTGAAAATGCTTTTTTTGTC	0.328	26	157
FHL5	9457	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	97053913	97053913	+	Missense_Mutation	SNP	A	A	G			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	TGTTTTGAGAAGGAGTTTGCT	0.383	10	68
EYA4	2070	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	133783471	133783471	+	Splice_Site	SNP	A	A	T			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	TCTGATATTTAGGCCCTATCC	0.438	32	222
NPSR1	387129	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	34724169	34724169	+	Silent	SNP	G	G	A			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	TGCAGACTGAGCAATTGATAA	0.433	39	70
PSD3	23362	hgsc.bcm.edu;broad.mit.edu	37	8	18393449	18393449	+	Missense_Mutation	SNP	T	T	C			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	AATGCTGACATACATTTCATA	0.488	4	100
NUGGC	389643	hgsc.bcm.edu;broad.mit.edu	37	8	27891083	27891083	+	Silent	SNP	G	G	T			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	AAACAGGGTCGATCTGGTCAT	0.453	4	43
DMRTA1	63951	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	9	22451627	22451627	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	GCTTTCTCTCCTCTTCAAACT	0.408	29	84
SOX17	64321	broad.mit.edu;ucsc.edu	37	8	55372386	55372386	+	Missense_Mutation	SNP	A	A	G			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	GGGGAGGTGGACCGCACGGAA	0.692	14	41
TRAF7	84231	broad.mit.edu;ucsc.edu	37	16	2223509	2223509	+	Missense_Mutation	SNP	T	T	C			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	CAGAGCAAGCTCAGCGAGGAC	0.682	40	66
EMG1	10436	broad.mit.edu;ucsc.edu	37	12	7083747	7083747	+	RNA	SNP	C	C	T			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	TCCCCTGAACCGAGCTGGCTT	0.493	16	34
FUBP1	8880	broad.mit.edu;hgsc.bcm.edu	37	1	78430643	78430643	+	Frame_Shift_Del	DEL	C	C	-			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	CATTTTAACTCCAGCCCGTTC	0.363	44	33
TRIP12	9320	broad.mit.edu;hgsc.bcm.edu	37	2	230638967	230638968	+	Frame_Shift_Del	DEL	CT	CT	-			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	ATACTGTAGACTCTCTTTGGTC	0.361	44	64
ARID1B	57492	broad.mit.edu;hgsc.bcm.edu	37	6	157469999	157469999	+	Frame_Shift_Del	DEL	G	G	-			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	GGCCAGGAATGGGGCCGCCAA	0.587	31	62
OR7A17	26333	broad.mit.edu;hgsc.bcm.edu	37	19	14991283	14991284	+	Frame_Shift_Del	DEL	TT	TT	-			TCGA-HT-7677-01A-11D-2253-08	TCGA-HT-7677-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	7a4bfd9a-4a16-41c9-91cb-97351c76ab0e	d27dc741-a306-47c4-a333-155ac43c9484	TCTTTATGTCTTTATTCCTCAG	0.436	20	86
