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
RET	5979	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	10	43609023	43609023	+	Silent	SNP	A	A	G			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	TTGTTGGGGGACACGAGCCTG	0.642	8	21
ABTB2	25841	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	34176285	34176285	+	Missense_Mutation	SNP	G	G	A			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	CATGGATTCTGTTCCTCCGTA	0.592	108	139
CTTN	2017	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	70261803	70261803	+	Missense_Mutation	SNP	A	A	G			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	GGGAAGACTGAGAAGCATGCC	0.532	212	362
CWF19L2	143884	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	107299708	107299708	+	Missense_Mutation	SNP	G	G	T			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	ACTCCATGATGTTAATCTTTC	0.418	42	527
LRIG3	121227	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	59271321	59271321	+	Silent	SNP	C	C	T			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	CATCGTCTAACGATGGGGCTG	0.562	52	81
TNRC6A	27327	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	24826581	24826581	+	Missense_Mutation	SNP	C	C	T			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	TGGCTGGCCACGTGCCAAATC	0.448	71	112
TP53	7157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	7578442	7578442	+	Missense_Mutation	SNP	T	T	C	rs148924904		TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	TGACTGCTTGTAGATGGCCAT	0.622	139	20
NEK8	284086	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	27065006	27065006	+	Silent	SNP	C	C	T			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	CTGGGCGTCTCATCCTGTGGG	0.701	45	57
SESN2	83667	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	28598956	28598956	+	Silent	SNP	C	C	T			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	GGCCATGGCTCATCACCAAGG	0.652	63	100
HRNR	388697	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	152192510	152192510	+	Missense_Mutation	SNP	C	C	T			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	AGACCCATGTCGGCTGTGTCC	0.567	45	414
IDH1	3417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	ATAAGCATGACGACCTATGAT	0.393	54	118
DAW1	164781	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	228750104	228750104	+	Missense_Mutation	SNP	G	G	C			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	GAGAATTAAAGACTAAGTCCA	0.343	19	258
OR5H6	79295	hgsc.bcm.edu;broad.mit.edu	37	3	97983515	97983515	+	Silent	SNP	T	T	C			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	CAGAATGTTTTCTCTTGGCAA	0.368	26	290
PDE6B	5158	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	659049	659049	+	Silent	SNP	A	A	G			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	TCCAGGTCGCACTTCTCGTGG	0.627	21	56
FOXP4	116113	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	41554783	41554783	+	Missense_Mutation	SNP	C	C	T			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	CCAGCAGCAGCTCCTGCAAAT	0.662	9	71
LAMA2	3908	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	129475728	129475728	+	Missense_Mutation	SNP	G	G	A			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	TTGAATATACGTGGAAAGTAC	0.388	83	111
MACC1	346389	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	20198861	20198861	+	Missense_Mutation	SNP	A	A	G			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	TTGGGTCCATAAATTCCAATT	0.398	66	95
SH2D3C	10044	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	9	130507277	130507277	+	Missense_Mutation	SNP	C	C	T			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	GTCTTTGGGGCACTTCCGGGA	0.662	24	189
MAP7D3	79649	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	135323365	135323365	+	Missense_Mutation	SNP	T	T	A			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	CCCATGACCATCTTTTTTGCT	0.323	91	137
FLOT1	10211	broad.mit.edu;ucsc.edu	37	6	30708275	30708275	+	Missense_Mutation	SNP	G	G	A	rs139987312	byFrequency	TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	TCTCTCACCCGGATCCCAGCA	0.532	106	143
WNT9B	7484	broad.mit.edu;ucsc.edu	37	17	44953783	44953783	+	Missense_Mutation	SNP	G	G	A	rs149931425	by1000genomes	TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	GCCTTGGGCCGCCTAGAGCTG	0.642	54	89
LIMCH1	22998	broad.mit.edu;ucsc.edu	37	4	41646515	41646515	+	Splice_Site	SNP	A	A	C			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	CTCCACACTCAGGAGCACCAG	0.672	10	9
C3P1	388503	broad.mit.edu;ucsc.edu	37	19	10165979	10165979	+	RNA	SNP	G	G	A			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	CACCTCCAAGGGGAACCCAGG	0.592	16	116
OR2T1	26696	broad.mit.edu;hgsc.bcm.edu	37	1	248570073	248570073	+	Frame_Shift_Del	DEL	C	C	-			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	GCTGCTGATTCCTTTCTCTGT	0.507	36	164
FAM208B	54906	broad.mit.edu;hgsc.bcm.edu	37	10	5784139	5784140	+	Frame_Shift_Del	DEL	AA	AA	-			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	GTTTTACAGCAATCAGAACAAA	0.396	70	217
ATRX	546	broad.mit.edu;hgsc.bcm.edu	37	X	76944356	76944356	+	Frame_Shift_Del	DEL	T	T	-			TCGA-E1-5322-01A-01D-1468-08	TCGA-E1-5322-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	52b650cf-fb99-462b-81a2-ce202f5c2eca	9b8501d7-1ba6-42ee-975c-dd1830d5a3a6	AAATGGAATCTTTTTGAAAAT	0.353	157	231
