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
KNDC1	85442	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	10	135038195	135038195	+	Missense_Mutation	SNP	C	C	T			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	CAGGTGCACGCGTTCCAGGAG	0.597	25	59
OR52B6	340980	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	5602864	5602864	+	Missense_Mutation	SNP	G	G	A			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	CAAGATGCCCGCTCCAAGGCC	0.507	43	340
MS4A6E	245802	hgsc.bcm.edu;broad.mit.edu	37	11	60105367	60105367	+	Missense_Mutation	SNP	G	G	T			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	TCTTTCTTATGATTATCATTC	0.403	14	199
AHNAK	79026	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	62299210	62299210	+	Silent	SNP	C	C	T			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	CTTCTGGGCCCTCTGCTTTGA	0.517	280	348
CWF19L2	143884	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	107224323	107224323	+	Missense_Mutation	SNP	T	T	C			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	TTTTTCCATTTGTGCAGCAAG	0.393	50	79
KSR2	283455	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	118016978	118016978	+	Missense_Mutation	SNP	G	G	A			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	GACTGTGCACGTCTGAGACAT	0.468	7	52
LMO7	4008	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	13	76382215	76382215	+	Missense_Mutation	SNP	G	G	A			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	TGGAAACTGGGAACTACCGTG	0.498	26	59
CYP1A1	1543	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	75012968	75012968	+	Silent	SNP	G	G	C			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	GGAAGAGAAAGACCTCCCAGC	0.542	35	141
IDH2	3418	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	90631838	90631838	+	Missense_Mutation	SNP	C	C	A	rs121913503		TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	ATGGGCGTGCCTGCCAATGGT	0.632	65	88
CDH5	1003	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	66436644	66436644	+	Missense_Mutation	SNP	G	G	A			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	CGAGCAGCTGGTCACCTACGA	0.711	5	17
KRT33B	3884	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	39521763	39521763	+	Missense_Mutation	SNP	C	C	T			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	TCCACCTCCACGTTGAGGCGG	0.522	27	40
ELL	8178	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	18557617	18557617	+	Silent	SNP	G	G	A	rs73923115	byFrequency	TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	TGCAGGTTCCGTTTAAACCTA	0.572	13	55
PRODH2	58510	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	36302867	36302867	+	Silent	SNP	C	C	T			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	TCCTTACCTGCCCAGAGTCCA	0.597	24	14
KLK4	9622	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	51411835	51411835	+	Splice_Site	SNP	C	C	T			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	GTGAGCTCACCGTTCGCCAGC	0.637	8	85
HRNR	388697	hgsc.bcm.edu;broad.mit.edu	37	1	152193228	152193228	+	Missense_Mutation	SNP	A	A	G			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	TGGCCCAAAGACTGACGGGAA	0.607	15	317
SELE	6401	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	169698637	169698637	+	Missense_Mutation	SNP	G	G	A			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	ACCTTTACACGTTGGCTTCTC	0.443	87	103
IL1RL2	8808	hgsc.bcm.edu;broad.mit.edu	37	2	102805614	102805614	+	Missense_Mutation	SNP	C	C	A			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	ACATTCCCTCCCATAACATCT	0.378	10	151
NEB	4703	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	152521900	152521900	+	Missense_Mutation	SNP	T	T	A			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	ATTGTGTCCATGGCGTAAGTG	0.507	33	41
KLHL30	377007	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	239051515	239051515	+	Missense_Mutation	SNP	G	G	A			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	GGAGGAGGAGGCAGGTGAGGA	0.672	6	18
SI	6476	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	164776970	164776970	+	Missense_Mutation	SNP	A	A	G	rs148511215	by1000genomes	TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	ATGATGACATATTTCTGTCCA	0.323	16	102
FSTL5	56884	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	162577528	162577528	+	Nonsense_Mutation	SNP	C	C	T			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	TGTTCCTTTTCCAGATAATGG	0.353	18	106
PSD3	23362	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	8	18725224	18725224	+	Missense_Mutation	SNP	T	T	C	rs62636654		TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	TTCGTGTAGATGGAGTCGCTG	0.507	73	111
KCNU1	157855	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	8	36671795	36671795	+	Missense_Mutation	SNP	A	A	G			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	GAGTCAATTTACCTGGTCATG	0.433	8	63
KLHL9	55958	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	9	21333865	21333865	+	Missense_Mutation	SNP	G	G	A			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	GCATCCATTGGGGCTAAAGAT	0.418	91	145
SIT1	27240	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	9	35650242	35650242	+	Splice_Site	SNP	C	C	T			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	AGACAGCCGTCCTGGGACGGG	0.627	55	78
ARSE	415	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	2867631	2867631	+	Missense_Mutation	SNP	G	G	A			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	AGGTTGACACGCTTCTCTGAG	0.527	9	77
MAGEB2	4113	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	30237371	30237371	+	Missense_Mutation	SNP	A	A	T			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	GAGATCTGGGAATTCCTGAAT	0.483	14	63
PGRMC1	10857	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	118370561	118370561	+	Missense_Mutation	SNP	C	C	T			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	CGCCGAGCTGCGGCGCTTCGA	0.711	16	31
LAMP2	3920	hgsc.bcm.edu;broad.mit.edu	37	X	119581704	119581704	+	Nonsense_Mutation	SNP	G	G	A			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	ACCTTATCCTGAGTGATGTTC	0.403	19	258
NAIP	4671	broad.mit.edu;ucsc.edu	37	5	70308387	70308387	+	Missense_Mutation	SNP	C	C	T			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	TGGATGAAACCTCTTGTGGTC	0.473	65	98
RP11-377D9.3	0	broad.mit.edu;ucsc.edu	37	12	13155006	13155006	+	RNA	SNP	G	G	C			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	CGTACCCTATGAGGCAGAAGG	0.483	4	15
PDHA1	5160	broad.mit.edu;ucsc.edu	37	X	19368118	19368118	+	Missense_Mutation	SNP	G	G	C			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	CAGGGAGGATGGGCTCAAATA	0.453	75	98
BRWD1	54014	broad.mit.edu;ucsc.edu	37	21	40590181	40590181	+	Missense_Mutation	SNP	C	C	T	rs75547980		TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	ACAGGGCCTGCAAAAGCTGCT	0.368	23	145
CIC	23152	broad.mit.edu;hgsc.bcm.edu	37	19	42795241	42795242	+	Frame_Shift_Ins	INS	-	-	GCCCCCT			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	GGGGCCCCTGCGCCCCCTGCTG	0.698	10	30
BCOR	54880	broad.mit.edu;hgsc.bcm.edu	37	X	39933875	39933875	+	Frame_Shift_Del	DEL	C	C	-			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	AGAAAGCGCTCCCCATTGGTG	0.577	42	66
NOTCH1	4851	ucsc.edu	37	9	139418186	139418186	+	Missense_Mutation	SNP	C	C	T			TCGA-E1-5318-01A-01D-1468-08	TCGA-E1-5318-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8c46a1df-1c10-4188-992a-a55b782494c9	0fce50b4-028d-4b54-aa49-3a8e28a7f7c6	GCCGGGCGGGCAGCGGCACTT	0.697	2	16
