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
FRMD4A	55691	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	10	13825006	13825006	+	Splice_Site	SNP	C	C	T			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	CTATATAGAACCTGAAAGAGA	0.428	41	60
KMT2A	4297	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	118374340	118374340	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	CAACCAAGCCCCAATAATACC	0.473	15	70
OR8B4	283162	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	124294595	124294595	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	AAAGTACATGGGGGTGTGAAG	0.413	30	57
PCDH20	64881	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	13	61986933	61986933	+	Silent	SNP	G	G	A			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	CATCTATCTCGTTTGCTATGT	0.418	22	110
MYH6	4624	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	23862627	23862627	+	Missense_Mutation	SNP	T	T	C			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	CTGAAGGTCATCCAGGGCCTG	0.512	56	56
LRRC49	54839	hgsc.bcm.edu;broad.mit.edu	37	15	71300791	71300791	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	TGAAGTGGACGGGGATACACT	0.418	3	67
TXNDC11	51061	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	11785796	11785796	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	CGCTGTGATCGTTGGCGGGTC	0.642	29	34
TP53	7157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	7577539	7577539	+	Missense_Mutation	SNP	G	G	A	rs121912651		TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	ATGGGCCTCCGGTTCATGCCG	0.577	39	77
TP53	7157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	7579314	7579314	+	Missense_Mutation	SNP	T	T	G			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	CAACTGACCGTGCAAGTCACA	0.547	51	55
UNC13A	23025	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	17743590	17743590	+	Splice_Site	SNP	C	C	T			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	AGGGGACTTACGCAGGGTACT	0.552	26	126
RYR1	6261	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	39039015	39039015	+	Silent	SNP	C	C	T			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	TCCAGGACTACGTAACGGATC	0.552	39	83
CCDC30	728621	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	43032078	43032078	+	Nonsense_Mutation	SNP	C	C	T			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	AAATGAGCTTCGATATGAACG	0.408	39	72
SYCP1	6847	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	115401230	115401230	+	Silent	SNP	A	A	G			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	AGATAAAAAAATGGAAAGTAA	0.328	15	71
H3F3A	3020	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	226252155	226252155	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	CTCTACTGGAGGGGTGAAGAA	0.458	18	28
NSFL1C	55968	hgsc.bcm.edu;broad.mit.edu	37	20	1445045	1445045	+	Silent	SNP	G	G	A			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	CATCCCCTCCGTCCTCATAAA	0.522	14	189
CHGB	1114	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	20	5905694	5905694	+	Silent	SNP	G	G	A			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	CAAAGGGGCTGACTGTCATTG	0.438	30	34
BPI	671	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	20	36952337	36952337	+	Silent	SNP	C	C	T			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	TGGAGTTTCCCGCTGCCCATG	0.537	35	72
ZNF217	7764	hgsc.bcm.edu;broad.mit.edu	37	20	52198916	52198916	+	Missense_Mutation	SNP	G	G	C			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	AAGAATCTTTGTGTGTTCTCA	0.423	10	178
MX2	4600	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	21	42774042	42774042	+	Silent	SNP	C	C	T			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	TTAGCATGCTCCAGAAAGCCA	0.517	26	93
ADARB1	104	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	21	46624592	46624592	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	ATGTACCAGCGGATCTCCAAC	0.522	44	75
SEC14L4	284904	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	22	30886219	30886219	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	TAGGTGTTGTCGAAGCGCAGG	0.592	37	123
DMC1	11144	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	22	38935415	38935415	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	GCGATCTGGACGGCTGGAGTA	0.403	40	57
UCN	7349	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	27530455	27530455	+	Silent	SNP	C	C	T			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	TCTGCGTCCGCGCCAGCTCCA	0.662	15	55
IL1RL2	8808	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	102818122	102818122	+	Missense_Mutation	SNP	T	T	G			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	CAAGCCATACTGACACACTCA	0.478	35	33
EDAR	10913	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	109547447	109547447	+	Silent	SNP	C	C	T			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	AGGGCGTCTGCGTGCAGTCCC	0.627	37	109
P2RY12	64805	hgsc.bcm.edu;broad.mit.edu	37	3	151055882	151055882	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	AAAATGGAAAGGAACAAAACA	0.428	3	39
TLR1	7096	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	38799739	38799739	+	Silent	SNP	C	C	T	rs146940675		TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	TTTGAAGTTTCGCCAGAATAC	0.343	9	39
PDGFRA	5156	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	55131206	55131206	+	Missense_Mutation	SNP	C	C	T			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	TGGACTTACCCTGGAGAAGTG	0.488	43	105
FSTL5	56884	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	162697149	162697149	+	Nonsense_Mutation	SNP	G	G	A			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	TCATTTTCTTGCATAATATAT	0.308	12	20
MCTP1	79772	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	94248540	94248540	+	Silent	SNP	G	G	T			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	TGCCCAAGCCGGAACTTCACG	0.473	25	93
T	6862	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	166579237	166579237	+	Missense_Mutation	SNP	G	G	A			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	CTGGGTCTCAGGGAAGCAGTG	0.557	76	378
HR	55806	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	8	21982885	21982885	+	Silent	SNP	C	C	T			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	ACAGTCGGTCCCCCAAACCAC	0.677	4	6
RLN1	6013	hgsc.bcm.edu;broad.mit.edu	37	9	5339680	5339680	+	Missense_Mutation	SNP	C	C	G			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	TTGGCCGCGACTGCTCTGGAA	0.517	7	125
TMEFF2	23671	broad.mit.edu;ucsc.edu	37	2	192922465	192922465	+	Missense_Mutation	SNP	G	G	T			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	ACAGGTGGATGTCTCCTTTTG	0.388	38	106
AFAP1L2	84632	broad.mit.edu;ucsc.edu	37	10	116060060	116060060	+	Missense_Mutation	SNP	G	G	A	rs144011687	byFrequency	TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	CTGCTGTTCCGTCTGGATTTT	0.607	15	169
PDGFRA	5156	broad.mit.edu;hgsc.bcm.edu	37	4	55133717	55133720	+	Splice_Site	DEL	AGAG	AGAG	-			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	TTCCCTGTACAGAGAAAGGTTTCA	0.441	22	91
SLC26A4	5172	broad.mit.edu;hgsc.bcm.edu	37	7	107312689	107312692	+	Frame_Shift_Del	DEL	AGTT	AGTT	-	rs111033199		TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	GACATATCTCAGTTGGTAATTATA	0.338	14	57
MGAT2	4247	broad.mit.edu;hgsc.bcm.edu	37	14	50089217	50089220	+	Frame_Shift_Del	DEL	CTAA	CTAA	-			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	TCCAGAAACTCTAACTATCAGTGA	0.392	29	46
ATRX	546	broad.mit.edu;hgsc.bcm.edu	37	X	76939510	76939511	+	Frame_Shift_Del	DEL	AA	AA	-			TCGA-HT-7469-01A-11D-2253-08	TCGA-HT-7469-10B-01D-2253-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5180e0db-a8cc-475e-b250-87f067cca7c4	4092f0cb-b02b-4506-9b7f-610b1df3c8c8	CTCGGAATTTAAGTCTTCTTCC	0.361	187	5
