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
FAM76B	143684	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	95512812	95512812	+	Missense_Mutation	SNP	C	C	G			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	TGGGCTTTTTCTTTGGAGTTT	0.308	20	172
MGAT4C	25834	hgsc.bcm.edu;broad.mit.edu	37	12	86373270	86373270	+	Missense_Mutation	SNP	C	C	G			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	TCCCCAACATCTAGGGCTCCA	0.318	5	65
HECTD1	25831	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	31590686	31590686	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	GCCAGCTCGACGTTGCAGGGA	0.507	18	38
PNN	5411	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	39648579	39648579	+	Missense_Mutation	SNP	A	A	G			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	TATAAGAACTAAGACAAAGCC	0.338	4	25
TP53	7157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	7577121	7577121	+	Missense_Mutation	SNP	G	G	A	rs121913343		TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	GCACAAACACGCACCTCAAAG	0.542	35	2
NLRP5	126206	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	56539141	56539141	+	Silent	SNP	C	C	T			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	CCCCTCGAGGCGTGGTCCGGC	0.592	17	22
OR6N2	81442	hgsc.bcm.edu;broad.mit.edu	37	1	158747181	158747181	+	Missense_Mutation	SNP	A	A	G			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	AATATTAGACAACATCTTAGG	0.448	11	167
SOGA1	140710	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	20	35445842	35445842	+	Silent	SNP	G	G	A			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	GCCTTCCCCAGGGAGCGGGTT	0.453	12	13
KRTAP13-3	337960	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	21	31798186	31798186	+	Silent	SNP	G	G	A			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	AGTAACCCCCGTGGGAGCAGG	0.542	79	102
COLEC11	78989	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	3691639	3691639	+	Silent	SNP	C	C	T			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	TGGCCTCGGGCGGCTGGAACG	0.617	52	71
XDH	7498	hgsc.bcm.edu;broad.mit.edu	37	2	31589846	31589846	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	TCTTGGCCACCGATGTATATC	0.537	8	136
LRP2	4036	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	170026253	170026253	+	Missense_Mutation	SNP	C	C	A			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	GTCAGCGGATCCATCGCATTT	0.428	17	138
IDH1	3417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	209113113	209113113	+	Missense_Mutation	SNP	G	G	A	rs121913499		TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	TAAGCATGACGACCTATGATG	0.398	54	59
FYCO1	79443	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	46023170	46023170	+	Splice_Site	SNP	T	T	C			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	TCACAGCATCTTTAAGACAAC	0.408	36	42
EPHA3	2042	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	89480429	89480429	+	Missense_Mutation	SNP	A	A	G			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	CTTGATCAACAGTAACTTGGT	0.478	21	44
SLCO4C1	353189	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	101631898	101631898	+	Missense_Mutation	SNP	C	C	G			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	GCGACGCAGACAAGCGGCGCA	0.577	24	39
MUC17	140453	hgsc.bcm.edu;ucsc.edu	37	7	100684864	100684864	+	Silent	SNP	A	A	T			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	GTACCAGCATACCAACCTCAA	0.502	573	511
C8orf47	0	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	8	99101917	99101917	+	Missense_Mutation	SNP	G	G	C			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	TTTCCAAAGAGAATGAATCTC	0.483	18	38
ZFAT	57623	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	8	135649705	135649705	+	Splice_Site	SNP	T	T	C			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	AGCATTTACCTGCTTCTCCTT	0.468	100	137
OR5C1	392391	hgsc.bcm.edu;broad.mit.edu	37	9	125551909	125551909	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	ATCCACATGCGCTCGGTCGAG	0.592	7	87
PAGE1	8712	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	49455852	49455852	+	Splice_Site	SNP	C	C	T			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	GACTACCTACCTTCTGCGGGC	0.468	16	71
TAF1	6872	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	70618475	70618475	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	CGAAAAGAACGGCGGAGGATT	0.473	29	44
ATRX	546	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	76813058	76813058	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	ATCAACAACTCGAAAAGACAG	0.343	66	83
HDX	139324	hgsc.bcm.edu;broad.mit.edu	37	X	83723854	83723854	+	Missense_Mutation	SNP	A	A	G			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	ATGGACAAACAATTTCCTTCT	0.473	9	147
ALG13	79868	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	110952273	110952273	+	Missense_Mutation	SNP	G	G	C			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	AAACTTTTGAGTCTGTAAGTA	0.388	5	11
MMGT1	93380	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	135047268	135047268	+	Missense_Mutation	SNP	G	G	A	rs150859420		TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	TGCTGTATCCGAAGGCCGGAA	0.358	40	283
AFF2	2334	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	148035253	148035253	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	GAGGCACCTCGTGTGGCAACT	0.567	88	125
TSR2	90121	broad.mit.edu;ucsc.edu	37	X	54470611	54470611	+	Missense_Mutation	SNP	G	G	C			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	GTGTGGAAGAGATGGAGGTGA	0.498	73	98
CD248	57124	broad.mit.edu;ucsc.edu	37	11	66084109	66084109	+	Silent	SNP	G	G	A			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	GGGCCACACAGCGCTGGGCCG	0.701	32	18
CELSR1	9620	broad.mit.edu;ucsc.edu	37	22	46793715	46793715	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	AGGGTGGCGACGTTGGTGGGC	0.602	15	19
SULT1E1	6783	broad.mit.edu;ucsc.edu	37	4	70709895	70709895	+	Silent	SNP	C	C	T			TCGA-HT-7693-01A-11D-2253-08	TCGA-HT-7693-10A-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6f18cb1e-8576-4fd3-a7a1-eb549089bad2	eb46a1d3-0492-467e-9576-fd233bbff676	TCATGAAGGGCGACAATTTCT	0.393	66	146
