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	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_alt_allele	validation_method	validation_status	validation_tumor_sample	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
VCPIP1	80124	broad.mit.edu	37	8	67577499	67577499	+	Silent	SNP	A	A	G			TCGA-QR-A70I-01A-11D-A35D-08	TCGA-QR-A70I-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	511408e9-fa79-4e82-bc2f-b4c0ec0b9882	247885fd-4d02-4b07-a03b-d969f8937718	g.chr8:67577499A>G	ENST00000310421.4	-	1	1953	c.1695T>C	c.(1693-1695)tcT>tcC	p.S565S		NM_025054.4	NP_079330.2	Q96JH7	VCIP1_HUMAN	valosin containing protein (p97)/p47 complex interacting protein 1	565					protein ubiquitination	endoplasmic reticulum|Golgi stack	ubiquitin-specific protease activity			breast(7)|central_nervous_system(2)|cervix(2)|endometrium(3)|kidney(6)|large_intestine(3)|lung(14)|ovary(2)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	45		Lung NSC(129;0.142)|all_lung(136;0.227)	Epithelial(68;0.000771)|OV - Ovarian serous cystadenocarcinoma(28;0.00248)|all cancers(69;0.00296)|BRCA - Breast invasive adenocarcinoma(89;0.149)			CAGTGGACCTAGAATTAGTTC	0.433000													5	160					0	0	1	0	0
ROBO4	54538	broad.mit.edu	37	11	124761327	124761327	+	Missense_Mutation	SNP	G	G	A			TCGA-QR-A70I-01A-11D-A35D-08	TCGA-QR-A70I-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	511408e9-fa79-4e82-bc2f-b4c0ec0b9882	247885fd-4d02-4b07-a03b-d969f8937718	g.chr11:124761327G>A	ENST00000306534.3	-	12	2301	c.1816C>T	c.(1816-1818)Cgc>Tgc	p.R606C	RP11-664I21.6_ENST00000524433.1_5'UTR|ROBO4_ENST00000533054.1_Missense_Mutation_p.R461C	NM_019055.5	NP_061928.4	Q8WZ75	ROBO4_HUMAN	roundabout, axon guidance receptor, homolog 4 (Drosophila)	606					angiogenesis|cell differentiation	integral to membrane	receptor activity			NS(2)|breast(1)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(11)|lung(42)|ovary(1)|prostate(4)|skin(5)|urinary_tract(3)	76	all_hematologic(175;0.215)	Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|Breast(109;0.171)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0301)		GGTGGGAGGCGCCTGACAGCT	0.662000													12	12					0	0	1	0	0
OBSCN	84033	broad.mit.edu	37	1	228464238	228464238	+	Missense_Mutation	SNP	C	C	T			TCGA-QR-A70I-01A-11D-A35D-08	TCGA-QR-A70I-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	511408e9-fa79-4e82-bc2f-b4c0ec0b9882	247885fd-4d02-4b07-a03b-d969f8937718	g.chr1:228464238C>T	ENST00000570156.2	+	26	7507	c.7433C>T	c.(7432-7434)gCg>gTg	p.A2478V	OBSCN_ENST00000359599.6_Missense_Mutation_p.A950V|OBSCN_ENST00000284548.11_Missense_Mutation_p.A2103V|OBSCN_ENST00000422127.1_Missense_Mutation_p.A2103V|OBSCN_ENST00000366709.4_5'UTR|OBSCN_ENST00000366707.4_5'UTR	NM_001271223.2	NP_001258152.2	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and titin-interacting RhoGEF	1469	Ig-like 24.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			NS(2)|breast(7)|central_nervous_system(5)|cervix(2)|endometrium(30)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(37)|lung(89)|ovary(8)|pancreas(3)|prostate(13)|skin(6)|stomach(11)|upper_aerodigestive_tract(2)|urinary_tract(3)	223		Prostate(94;0.0405)				CTGTCGCATGCGGACGTGGAT	0.692000													3	43					0	0	1	0	0
AKAP9	10142	broad.mit.edu	37	7	91623993	91623993	+	Missense_Mutation	SNP	C	C	A			TCGA-QR-A70I-01A-11D-A35D-08	TCGA-QR-A70I-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	511408e9-fa79-4e82-bc2f-b4c0ec0b9882	247885fd-4d02-4b07-a03b-d969f8937718	g.chr7:91623993C>A	ENST00000359028.2	+	7	896	c.671C>A	c.(670-672)gCt>gAt	p.A224D	AKAP9_ENST00000394564.1_Missense_Mutation_p.A212D|AKAP9_ENST00000358100.2_Missense_Mutation_p.A224D|AKAP9_ENST00000356239.3_Missense_Mutation_p.A212D			Q99996	AKAP9_HUMAN	A kinase (PRKA) anchor protein 9	224	Gln-rich.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			NS(1)|autonomic_ganglia(2)|breast(14)|central_nervous_system(3)|cervix(1)|endometrium(13)|kidney(12)|large_intestine(35)|lung(49)|ovary(8)|prostate(6)|skin(8)|stomach(1)|urinary_tract(2)	155	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			CAGCTCACTGCTAATTTACAA	0.313000			T	BRAF	papillary thyroid								3	44					0.004672	0.00503138	1	1	0
JAK2	3717	broad.mit.edu	37	9	5069080	5069080	+	Missense_Mutation	SNP	A	A	C			TCGA-QR-A70I-01A-11D-A35D-08	TCGA-QR-A70I-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	511408e9-fa79-4e82-bc2f-b4c0ec0b9882	247885fd-4d02-4b07-a03b-d969f8937718	g.chr9:5069080A>C	ENST00000381652.3	+	11	1879	c.1385A>C	c.(1384-1386)tAc>tCc	p.Y462S	JAK2_ENST00000539801.1_Missense_Mutation_p.Y462S|JAK2_ENST00000544510.1_Missense_Mutation_p.Y313S	NM_004972.3	NP_004963.1	O60674	JAK2_HUMAN	Janus kinase 2	462	SH2; atypical.				actin filament polymerization|activation of caspase activity by protein phosphorylation|activation of JAK2 kinase activity|blood coagulation|cellular component movement|erythrocyte differentiation|interferon-gamma-mediated signaling pathway|interleukin-12-mediated signaling pathway|JAK-STAT cascade involved in growth hormone signaling pathway|mammary gland epithelium development|mesoderm development|negative regulation of cell proliferation|negative regulation of DNA binding|positive regulation of apoptosis|positive regulation of cell-substrate adhesion|positive regulation of growth hormone receptor signaling pathway|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of tumor necrosis factor production|positive regulation of tyrosine phosphorylation of Stat3 protein|positive regulation of tyrosine phosphorylation of Stat5 protein|protein autophosphorylation|regulation of inflammatory response|regulation of interferon-gamma-mediated signaling pathway|response to antibiotic|response to lipopolysaccharide|STAT protein import into nucleus|tumor necrosis factor-mediated signaling pathway|tyrosine phosphorylation of STAT protein	caveola|cytoskeleton|cytosol|endomembrane system|nucleus	ATP binding|growth hormone receptor binding|heme binding|histone binding|histone kinase activity (H3-Y41 specific)|interleukin-12 receptor binding|non-membrane spanning protein tyrosine kinase activity|protein kinase binding|SH2 domain binding		BCR/JAK2(6)|SSBP2/JAK2(4)|SEC31A/JAK2(4)|ETV6/JAK2(11)|PCM1/JAK2(30)|PAX5/JAK2(18)	breast(5)|endometrium(4)|haematopoietic_and_lymphoid_tissue(32944)|kidney(4)|large_intestine(10)|liver(1)|lung(20)|ovary(3)|prostate(4)|skin(2)|urinary_tract(1)	32998	all_hematologic(13;0.137)	Acute lymphoblastic leukemia(23;0.0198)|Breast(48;0.147)		GBM - Glioblastoma multiforme(50;0.0237)|Lung(218;0.133)		AATGAAGAGTACAACCTCAGT	0.328000		1	"""T, Mis, O"""	"""ETV6, PCM1, BCR"""	"""ALL, AML, MPD,  CML"""				Polycythemia Vera, Familial				19	34					0	0	1	0	0
C16orf70	80262	broad.mit.edu	37	16	67168285	67168285	+	Silent	SNP	C	C	T			TCGA-QR-A70I-01A-11D-A35D-08	TCGA-QR-A70I-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	511408e9-fa79-4e82-bc2f-b4c0ec0b9882	247885fd-4d02-4b07-a03b-d969f8937718	g.chr16:67168285C>T	ENST00000219139.3	+	8	764	c.576C>T	c.(574-576)ttC>ttT	p.F192F	C16orf70_ENST00000569683.1_3'UTR|C16orf70_ENST00000569600.1_Silent_p.F192F	NM_025187.3	NP_079463.2	Q9BSU1	CP070_HUMAN	chromosome 16 open reading frame 70	192										cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(2)|lung(6)|ovary(3)|skin(1)	17		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0017)|Epithelial(162;0.00655)|all cancers(182;0.0579)		TGAGCTGTTTCCTGGGCAATG	0.532000													5	270					0	0	1	0	0
AMZ2P1	0	broad.mit.edu	37	17	62968690	62968690	+	RNA	SNP	A	A	G	rs138671696	by1000genomes	TCGA-QR-A70I-01A-11D-A35D-08	TCGA-QR-A70I-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	511408e9-fa79-4e82-bc2f-b4c0ec0b9882	247885fd-4d02-4b07-a03b-d969f8937718	g.chr17:62968690A>G	ENST00000430983.1	-	0	1554					NR_026903.1																						AAAATTCCACAAGTCTCTTGG	0.373000													5	84					0	0	1	0	0
AC018737.1	0	broad.mit.edu	37	2	122466739	122466740	+	RNA	INS	-	-	T	rs6733674	by1000genomes	TCGA-QR-A70I-01A-11D-A35D-08	TCGA-QR-A70I-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	511408e9-fa79-4e82-bc2f-b4c0ec0b9882	247885fd-4d02-4b07-a03b-d969f8937718	g.chr2:122466739_122466740insT	ENST00000419902.1	+	0	637					NR_037857.1																						tttttttgttgttttttttttg	0.460													4	6	---	---	---	---					
RP11-584P21.2	0	broad.mit.edu	37	4	68311853	68311855	+	RNA	DEL	GAG	GAG	-			TCGA-QR-A70I-01A-11D-A35D-08	TCGA-QR-A70I-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	511408e9-fa79-4e82-bc2f-b4c0ec0b9882	247885fd-4d02-4b07-a03b-d969f8937718	g.chr4:68311853_68311855delGAG	ENST00000502400.1	-	0	34																											TCTCTATGGCGAGGAGGAGGAGG	0.547													2	4	---	---	---	---					
INTS4L2	0	broad.mit.edu	37	7	65150824	65150825	+	RNA	INS	-	-	G			TCGA-QR-A70I-01A-11D-A35D-08	TCGA-QR-A70I-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	511408e9-fa79-4e82-bc2f-b4c0ec0b9882	247885fd-4d02-4b07-a03b-d969f8937718	g.chr7:65150824_65150825insG	ENST00000430126.2	+	0	757																											TCACCCCCCCCCCCGTTAAAAT	0.470													3	6	---	---	---	---					
RP11-271K11.5	0	broad.mit.edu	37	17	29369492	29369493	+	RNA	DEL	CA	CA	-			TCGA-QR-A70I-01A-11D-A35D-08	TCGA-QR-A70I-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	511408e9-fa79-4e82-bc2f-b4c0ec0b9882	247885fd-4d02-4b07-a03b-d969f8937718	g.chr17:29369492_29369493delCA	ENST00000583112.1	-	0	628																		p.?(1)									cacaggcaagcacacacacaca	0.510													2	4	---	---	---	---					
NUDT11	0	broad.mit.edu	37	X	51239296	51239309	+	Translation_Start_Site	DEL	TCCTCGAGGCAGCC	TCCTCGAGGCAGCC	-	rs78182391		TCGA-QR-A70I-01A-11D-A35D-08	TCGA-QR-A70I-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	511408e9-fa79-4e82-bc2f-b4c0ec0b9882	247885fd-4d02-4b07-a03b-d969f8937718	g.chrX:51239296_51239309delTCCTCGAGGCAGCC	ENST00000375992.3	-	0	139_152					NM_018159.3	NP_060629.2	Q96G61	NUD11_HUMAN	nudix (nucleoside diphosphate linked moiety X)-type motif 11							cytoplasm	diphosphoinositol-polyphosphate diphosphatase activity|metal ion binding	p.?(5)		breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(2)|prostate(1)|upper_aerodigestive_tract(2)	9	Ovarian(276;0.236)					TTGCACTTCATCCTCGAGGCAGCCTCCTCGAGGC	0.692										HNSCC(48;0.14)			4	4	---	---	---	---					
