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
PLCE1	51196	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	10	96084175	96084175	+	Missense_Mutation	SNP	G	G	A			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	TGTGCTTTTGGAAGAGGTGGT	0.448	130	159
NT5DC3	51559	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	104179169	104179169	+	Missense_Mutation	SNP	A	A	G			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	GTTTGAATGTATTGCTCCGTG	0.428	47	56
TCP11L2	255394	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	106729466	106729466	+	Missense_Mutation	SNP	A	A	C			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	TAAATGAAGAATTATTTTCTC	0.398	33	40
POLG	5428	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	89864982	89864982	+	Silent	SNP	G	G	A			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	CATTGCTGGCGGTGAGCCATG	0.602	50	71
MARVELD3	91862	hgsc.bcm.edu;ucsc.edu	37	16	71668568	71668568	+	Silent	SNP	C	C	T			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	GCTGCAGTTTCCACGGAGCAG	0.542	42	49
KRT34	3885	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	39538275	39538275	+	Missense_Mutation	SNP	C	C	T			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	CTCCAGCTGACGCACCTTCTC	0.597	80	136
DSG2	1829	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	18	29102122	29102122	+	Silent	SNP	C	C	T			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	CCTATAGAATCGTATCTCTGG	0.378	17	42
KCNG2	26251	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	18	77624219	77624219	+	Silent	SNP	G	G	A			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	GCGTGTCCGTGTCCTTCGTGG	0.766	16	44
PRAMEF1	65121	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	12853498	12853498	+	Missense_Mutation	SNP	T	T	G	rs149824309		TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	CCACTCTTCATGGAGGCCTTC	0.587	103	37
PKP1	5317	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	201282317	201282317	+	Silent	SNP	G	G	A			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	CCCTCAAGCGGGAGCCTGACA	0.592	6	5
ARFGEF2	10564	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	20	47626800	47626800	+	Missense_Mutation	SNP	T	T	C			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	GGCGATCCGCTGCATTGCCCA	0.537	27	93
RNF103	7844	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	86831209	86831209	+	Silent	SNP	T	T	C			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	ACCAATCAGGTTCCATATCTT	0.413	99	176
LRP1B	53353	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	142567938	142567938	+	Missense_Mutation	SNP	A	A	G			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	TGATCGTGGCAAAGAAATTCA	0.443	22	17
IDH1	3417	hgsc.bcm.edu;broad.mit.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	ATAAGCATGACGACCTATGAT	0.393	32	39
FBXO36	130888	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	230861511	230861511	+	Missense_Mutation	SNP	A	A	G			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	AGACTATGTCATCAATTTGTG	0.348	53	74
CLIP2	7461	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	73731911	73731911	+	Missense_Mutation	SNP	G	G	A	rs151111065	byFrequency	TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	CCCCCCGGCCGTGGGGGGAAG	0.662	36	108
DLX5	1749	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	96650149	96650149	+	Missense_Mutation	SNP	C	C	T			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	TACCAGGATGCAGAGTTCTCC	0.652	37	36
KIAA0368	23392	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	9	114170943	114170943	+	Nonsense_Mutation	SNP	G	G	A			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	TGGATTGCTCGTTCTTTCATC	0.398	12	5
PCDHGA7	56108	broad.mit.edu;ucsc.edu	37	5	140764645	140764645	+	Missense_Mutation	SNP	G	G	A			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	CCTGCTGCAGGCTTCAGAAGG	0.637	49	42
VSIG4	11326	broad.mit.edu;ucsc.edu	37	X	65247365	65247365	+	Missense_Mutation	SNP	G	G	A			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	CACTGTAGATGTTGCTATGAA	0.468	8	16
LTBP3	4054	broad.mit.edu;ucsc.edu	37	11	65321228	65321228	+	Missense_Mutation	SNP	G	G	A			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	TGGGTGGGCGGCCGGGGGTGC	0.677	3	15
TCF12	6938	broad.mit.edu;hgsc.bcm.edu	37	15	57523456	57523457	+	Splice_Site	INS	-	-	T			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	TTTATGCAAGGTAAGTACTACC	0.386	43	60
CIC	23152	broad.mit.edu;hgsc.bcm.edu	37	19	42795074	42795075	+	Frame_Shift_Ins	INS	-	-	G			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	CTCGGGTGCCTGGGGGCTCCCC	0.644	12	7
NOTCH1	4851	ucsc.edu	37	9	139413126	139413126	+	Missense_Mutation	SNP	C	C	G			TCGA-CS-6668-01A-11D-1893-08	TCGA-CS-6668-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d414e076-dcb6-4edf-adef-0abdc57354ea	7154a36b-c503-43f5-b291-89bd5ce2875f	GGCGCTGGCACAGTCATCAAT	0.637	3	77
