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
INTS4	92105	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	77639508	77639508	+	Silent	SNP	A	A	T			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	TGAACATGTCAACTAGGAAAT	0.443	47	24
MAML2	84441	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	95712904	95712904	+	Missense_Mutation	SNP	C	C	G			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	TTGGGTTTCTCTGTTGGGTCA	0.408	114	97
ATN1	1822	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	7046127	7046127	+	Missense_Mutation	SNP	C	C	T			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	CCCAATGGCCCTCCAGTCTCT	0.637	17	216
SPTBN5	51332	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	42172441	42172441	+	Silent	SNP	A	A	G			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	TCCAGCCACAACTGGAGCTCC	0.632	8	18
ACAN	176	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	89398499	89398499	+	Missense_Mutation	SNP	C	C	T			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	AAGTGGACTGCCCTCTGGAGA	0.572	40	58
SLX4	84464	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	3640690	3640690	+	Silent	SNP	G	G	A			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	AGAGCTGTTCGTAATCCCCGG	0.572	130	123
ABCC12	94160	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	48174762	48174762	+	Silent	SNP	G	G	A			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	GCTATGCACAGTCCAATGCCA	0.537	79	105
TP53	7157	hgsc.bcm.edu;broad.mit.edu	37	17	7574035	7574035	+	Splice_Site	SNP	T	T	G			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	CCCACGGATCTGCAGCAACAG	0.507	15	33
TP53	7157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	7577572	7577572	+	Missense_Mutation	SNP	T	T	C			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	CTGTTACACATGTAGTTGTAG	0.572	45	77
NF1	4763	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	29556166	29556166	+	Missense_Mutation	SNP	T	T	C			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	TGGCTTCCTTTGTGCCCTTGG	0.512	101	12
CCDC40	55036	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	78032380	78032380	+	Missense_Mutation	SNP	G	G	A			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	GACGACATCCGCGTGATGACA	0.537	120	12
PLIN4	729359	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	4511095	4511095	+	Silent	SNP	G	G	A			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	CATCCTTAGCGCCACTCAGCA	0.592	34	83
NOTCH3	4854	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	15281250	15281250	+	Missense_Mutation	SNP	C	C	T			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	GCTGTGCTCGCGCTTGCGCCG	0.677	45	65
SLC7A9	11136	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	33350866	33350866	+	Missense_Mutation	SNP	G	G	T			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	GCCAAAGGCAGGTTTCTGGGA	0.602	21	80
LPHN2	23266	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	82456736	82456736	+	Silent	SNP	T	T	C			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	gcaggggcaatagtgatggtt	0.428	48	69
RFWD2	64326	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	176132075	176132075	+	Missense_Mutation	SNP	T	T	C			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	ATCAAGGTTATCTTGGTCAGT	0.358	85	99
RBM11	54033	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	21	15599378	15599378	+	Missense_Mutation	SNP	G	G	A			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	TCAGATGACAGCTCCACTTCC	0.463	100	373
APOB	338	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	21228172	21228172	+	Silent	SNP	G	G	A			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	GCTCAGGCACGATGATGGTGG	0.473	110	131
ACOXL	55289	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	111562956	111562956	+	Missense_Mutation	SNP	C	C	T			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	GCTTTCCAAGCTATGGGTGCC	0.453	76	121
NDUFAF3	25915	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	49059582	49059582	+	Missense_Mutation	SNP	C	C	G			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	TCAGCCATGGCCACCGCTCTC	0.716	13	22
UBXN7	26043	hgsc.bcm.edu;broad.mit.edu	37	3	196094958	196094958	+	Missense_Mutation	SNP	C	C	T			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	CCATGTTCACCCAGAAATCCC	0.398	20	243
HIST1H4G	8369	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	26247163	26247163	+	Missense_Mutation	SNP	C	C	T			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	CACTTGGCACCGCCTTTCCCA	0.517	20	105
HLA-DQA2	3118	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	32713607	32713607	+	Missense_Mutation	SNP	C	C	T	rs144060347		TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	TTTCCTGTGACGCTGGGTCAG	0.507	130	127
SLC25A40	55972	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	87466058	87466058	+	Silent	SNP	G	G	A			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	AAAATAATCCGGAAAATCCAT	0.259	28	72
CPA1	1357	hgsc.bcm.edu;broad.mit.edu	37	7	130024455	130024455	+	Missense_Mutation	SNP	G	G	A			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	GAACTGGGACGCTGGCTTTGG	0.602	12	151
ZCRB1	85437	broad.mit.edu;ucsc.edu	37	12	42711595	42711595	+	Missense_Mutation	SNP	G	G	T			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	TTACCTGTTTGTTGTTTATTG	0.393	90	137
UGGT1	56886	broad.mit.edu;hgsc.bcm.edu	37	2	128938471	128938471	+	Frame_Shift_Del	DEL	T	T	-			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	TAGGAGTTTATACCTTACATG	0.373	54	73
TP63	8626	broad.mit.edu;hgsc.bcm.edu	37	3	189612149	189612149	+	Frame_Shift_Del	DEL	G	G	-			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	AGTGAGACCCGGGGTGAGCGT	0.567	107	155
TP53	7157	broad.mit.edu;hgsc.bcm.edu	37	17	7574025	7574025	+	Frame_Shift_Del	DEL	C	C	-			TCGA-DH-5140-01A-01D-1468-08	TCGA-DH-5140-10A-01D-1468-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	4472483c-47e2-47f0-b02f-6a8cb4c7bd96	310c380c-c166-4480-ae74-62a9ff686291	AGCGCTCACGCCCACGGATCT	0.522	19	38
