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
TEAD1	7003	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	12901386	12901386	+	Silent	SNP	G	G	A			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	CAGGGGCGCCGGGGGTAAGTC	0.597	50	87
VRTN	55237	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	74825020	74825020	+	Missense_Mutation	SNP	C	C	T			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	GAGGCGTCTGCGCAGGGCTGC	0.677	67	83
EML1	2009	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	100367314	100367314	+	Missense_Mutation	SNP	C	C	G			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	ATTGAATACTCTCCACGTCAT	0.433	45	74
C17orf77	0	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	72588190	72588190	+	Missense_Mutation	SNP	A	A	T			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	GCATGGATGGATGAATTGGCG	0.438	49	140
LLGL2	3993	hgsc.bcm.edu;broad.mit.edu	37	17	73570548	73570548	+	Missense_Mutation	SNP	A	A	G			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	CCTGAAGGAAATCCAGAGCAC	0.697	4	7
PALM	5064	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	746735	746735	+	Missense_Mutation	SNP	C	C	T			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	GAGAATCAGGCGGGGCCCGAG	0.672	15	11
CIC	23152	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	42799051	42799051	+	Missense_Mutation	SNP	G	G	A			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	TTGAAGATCCGTGAGGTGCGC	0.627	62	27
FUBP1	8880	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	78429937	78429937	+	Splice_Site	SNP	A	A	C			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	ATATGTACTCACCTGGCTTAA	0.333	18	13
DCAF6	55827	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	167956741	167956741	+	Silent	SNP	T	T	C			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	AGATTATGACTGTACCCAATG	0.358	7	43
KIDINS220	57498	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	8872066	8872066	+	Missense_Mutation	SNP	T	T	C			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	AATACTGGAATCCTGGGAATT	0.388	45	70
IDH1	3417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	ATAAGCATGACGACCTATGAT	0.393	27	40
POLQ	10721	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	121186388	121186388	+	Silent	SNP	T	T	A			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	CAAAGGCATGTCGCATGCTAA	0.443	15	21
XRN1	54464	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	142136035	142136035	+	Silent	SNP	C	C	T			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	ACTGTATTGCCTGAACATAAC	0.348	28	53
PIK3CA	5290	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	178936091	178936091	+	Missense_Mutation	SNP	G	G	A	rs104886003		TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	TGAAATCACTGAGCAGGAGAA	0.353	8	23
HSPA4L	22824	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	128739562	128739562	+	Missense_Mutation	SNP	G	G	A			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	GATCATACAGGAGCCAAAACA	0.313	30	47
ENPP1	5167	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	132198210	132198210	+	Missense_Mutation	SNP	C	C	T			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	CCTGTTTATACGCCAAAGCAT	0.448	15	14
GLT6D1	360203	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	9	138516117	138516117	+	Silent	SNP	C	C	T			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	CCTGTCCAAACGGGATGCAAG	0.493	50	86
ITIH6	347365	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	54777673	54777673	+	Missense_Mutation	SNP	A	A	G			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	CCTCGCAAAGATATAGAACTG	0.592	36	50
TREML2	79865	broad.mit.edu;ucsc.edu	37	6	41165879	41165879	+	Missense_Mutation	SNP	G	G	A			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	GCCCATCAAGGGGTACAGGAT	0.612	6	52
RGAG4	340526	broad.mit.edu;hgsc.bcm.edu	37	X	71351107	71351107	+	Frame_Shift_Del	DEL	T	T	-			TCGA-DB-A64Q-01A-11D-A29Q-08	TCGA-DB-A64Q-10A-01D-A29Q-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	fb1dc195-0b41-4ff7-8364-7fdcb4a96521	62bd6123-d070-4bde-af89-8177daee0949	ACAGTCGGGCTCCGCGCGTGG	0.647	28	24
