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
ATAD1	84896	hgsc.bcm.edu;broad.mit.edu	37	10	89536119	89536119	+	Missense_Mutation	SNP	T	T	G			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	CAGAGACTCATAAACTGAGCT	0.378	13	220
NPAT	4863	hgsc.bcm.edu;broad.mit.edu	37	11	108043929	108043929	+	Silent	SNP	A	A	G			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	TATCTTGGCAATTTGATAGCT	0.313	9	131
NCAM1	4684	hgsc.bcm.edu;broad.mit.edu	37	11	113076288	113076288	+	Silent	SNP	G	G	A			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	AGGAGTTCCGGGAGGGGGAAG	0.507	7	100
KRT76	51350	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	53169301	53169301	+	Missense_Mutation	SNP	C	C	T			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	AGGCTCCAGGCTGCTGGGCCC	0.557	80	115
REM2	161253	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	23354069	23354069	+	Missense_Mutation	SNP	C	C	T			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	TCCTCTGGCTCGTCTGACTCC	0.612	14	94
CDC42BPB	9578	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	103430859	103430859	+	Silent	SNP	G	G	A			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	TGAGGTTGGCGTCCTTGACCT	0.652	16	63
NDN	4692	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	23932264	23932264	+	Missense_Mutation	SNP	G	G	A			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	GGTCGCGGACGGAGGAACCCC	0.692	7	27
ITGA11	22801	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	68643096	68643096	+	Missense_Mutation	SNP	C	C	T			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	GGATTGATCCCCCTGCGGTTG	0.502	29	86
ATXN2L	11273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	28846974	28846974	+	Silent	SNP	T	T	C			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	CACCGGGACCTTCTGCCCAGT	0.662	9	72
TP53	7157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	7577568	7577568	+	Missense_Mutation	SNP	C	C	T			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	GGAACTGTTACACATGTAGTT	0.572	46	76
TP53	7157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	7578263	7578263	+	Nonsense_Mutation	SNP	G	G	A			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	CCTTCCACTCGGATAAGATGC	0.552	27	35
MUC16	94025	hgsc.bcm.edu;broad.mit.edu	37	19	9086351	9086351	+	Missense_Mutation	SNP	T	T	A			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	ATTGATGGAGTTGGAGATGGA	0.483	8	137
SMARCA4	6597	hgsc.bcm.edu;broad.mit.edu	37	19	11098500	11098500	+	Missense_Mutation	SNP	G	G	A			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	GGCCCAGCCCGCGCCCATGGT	0.746	11	7
ATP4A	495	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	36054521	36054521	+	Splice_Site	SNP	G	G	A			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	CCCACTCACGGCCTTCCCCAT	0.652	9	46
PANK4	55229	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	2440330	2440330	+	Missense_Mutation	SNP	G	G	A			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	CTGAAGAGCCGGCCGCCCAGC	0.622	19	24
ZZZ3	26009	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	78041829	78041829	+	Missense_Mutation	SNP	G	G	A			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	ATACACTGGCGGTTCATGTGA	0.378	39	68
RBMXL1	494115	hgsc.bcm.edu;broad.mit.edu	37	1	89448635	89448635	+	Missense_Mutation	SNP	C	C	T			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	TGGAGCACTACGTGAGTTACC	0.483	19	301
ZNF831	128611	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	20	57769660	57769660	+	Missense_Mutation	SNP	G	G	A			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	CCCTCTGCCCGCGGAGCAGAA	0.637	25	24
IDH1	3417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	ATAAGCATGACGACCTATGAT	0.393	24	75
MSX2	4488	hgsc.bcm.edu;broad.mit.edu	37	5	174156254	174156254	+	Missense_Mutation	SNP	G	G	A			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	CCTCGCCCTGGAGCGCAAGTT	0.552	4	78
DNAH8	1769	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	38976646	38976646	+	Missense_Mutation	SNP	A	A	G			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	ATTCAACCCAAAGAGAGTGGA	0.423	87	158
PHF10	55274	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	170112612	170112612	+	Missense_Mutation	SNP	T	T	C			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	TAATGGCAGATACCGCAGCTC	0.438	10	117
TNFSF15	9966	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	9	117552881	117552881	+	Missense_Mutation	SNP	C	C	T	rs150498686		TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	CTACCTACTTCGCATACAGAC	0.527	10	62
ATRX	546	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	76939522	76939522	+	Nonsense_Mutation	SNP	A	A	T	rs122445109		TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	GTCTTCTTCCAATGCAAGATG	0.363	241	64
CCNB1IP1	57820	broad.mit.edu;ucsc.edu	37	14	20779861	20779861	+	Missense_Mutation	SNP	C	C	T			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	CCATCTCCATCGCCCCGATTT	0.398	8	103
RIOK3	8780	broad.mit.edu;ucsc.edu	37	18	21057190	21057190	+	Missense_Mutation	SNP	C	C	A	rs56187215		TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	CCCACCCTCACGGCCTGGAGT	0.413	53	70
HSP90AB2P	391634	broad.mit.edu;ucsc.edu	37	4	13339305	13339305	+	RNA	SNP	A	A	T			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	AAAATCTTCAAAGTCATTCAC	0.423	6	21
MYH2	4620	broad.mit.edu;ucsc.edu	37	17	10451106	10451106	+	Missense_Mutation	SNP	T	T	A			TCGA-FG-6690-01A-11D-1893-08	TCGA-FG-6690-10A-01D-1893-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	68080470-9502-41cb-b0e1-786f2c3fe62a	b8e3eb49-7c11-4317-93ef-7dae88807e25	CAAAGGATTCTTTGGGCTCCG	0.537	83	122
