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
RP11-146E13.4	0	broad.mit.edu	37	14	19857036	19857036	+	RNA	SNP	A	A	G			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr14:19857036A>G	ENST00000548109.1	+	0	72																											CTGGATAATAAAGTTCATCTC	0.373000													3	180					0	0	0.004672	0	0
ANKRD32	84250	broad.mit.edu	37	5	94022316	94022316	+	Missense_Mutation	SNP	T	T	C			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr5:94022316T>C	ENST00000265140.5	+	16	2433	c.2014T>C	c.(2014-2016)Ttt>Ctt	p.F672L		NM_032290.3	NP_115666.2	Q9BQI6	ANR32_HUMAN	ankyrin repeat domain 32	672										NS(1)|breast(2)|endometrium(2)|large_intestine(1)|lung(3)|ovary(2)|prostate(1)|skin(1)	13		all_cancers(142;1.51e-09)|all_epithelial(76;4.68e-12)|all_lung(232;5.94e-05)|Ovarian(174;0.000953)|Lung NSC(167;0.00105)|Colorectal(57;0.122)|Lung SC(612;0.152)		all cancers(79;3.88e-18)		CATTTGCTCCTTTTCCTCCTC	0.383000													3	150					0	0	0.004672	0	0
CYLD	1540	broad.mit.edu	37	16	50815182	50815182	+	Missense_Mutation	SNP	A	A	T			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr16:50815182A>T	ENST00000540145.1	+	10	1959	c.1544A>T	c.(1543-1545)gAt>gTt	p.D515V	CYLD_ENST00000564326.1_Missense_Mutation_p.D512V|CYLD_ENST00000569418.1_Missense_Mutation_p.D512V|CYLD_ENST00000427738.3_Missense_Mutation_p.D515V|CYLD_ENST00000568704.2_Intron|CYLD_ENST00000566206.1_Missense_Mutation_p.D512V|CYLD_ENST00000398568.2_Missense_Mutation_p.D512V|CYLD_ENST00000311559.9_Missense_Mutation_p.D515V			Q9NQC7	CYLD_HUMAN	cylindromatosis (turban tumor syndrome)	515	CAP-Gly 3.|Interaction with IKBKG/NEMO.|Interaction with TRIP.				cell cycle|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K63-linked deubiquitination|regulation of microtubule cytoskeleton organization|regulation of mitotic cell cycle|translation|ubiquitin-dependent protein catabolic process|Wnt receptor signaling pathway	cytosol|extrinsic to internal side of plasma membrane|microtubule|perinuclear region of cytoplasm|ribosome	proline-rich region binding|protein kinase binding|structural constituent of ribosome|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			central_nervous_system(4)|endometrium(1)|haematopoietic_and_lymphoid_tissue(4)|kidney(3)|large_intestine(9)|lung(17)|pancreas(1)|skin(22)|upper_aerodigestive_tract(1)	62		all_cancers(37;0.0156)				GGCTGTACGGATGGAACCTTC	0.448000			"""Mis, N, F, S"""		cylindroma	cylindroma			Multiple Trichoepithelioma, Familial;Familial Cylindromatosis				42	31					0	0	0.008740	0	0
BTC	685	broad.mit.edu	37	4	75681110	75681110	+	Silent	SNP	C	C	T			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr4:75681110C>T	ENST00000395743.3	-	3	600	c.240G>A	c.(238-240)ggG>ggA	p.G80G		NM_001729.2	NP_001720.1	P35070	BTC_HUMAN	betacellulin	80	EGF-like.				positive regulation of cell division|positive regulation of cell proliferation	extracellular space|integral to membrane|plasma membrane|soluble fraction	epidermal growth factor receptor binding|growth factor activity			central_nervous_system(1)|cervix(1)|kidney(1)|large_intestine(3)|lung(2)|skin(1)|upper_aerodigestive_tract(1)	10			Lung(101;0.219)			AGCGGCATCTCCCTTTGATGC	0.532000													47	85					0	0	0.003610	0	0
NBPF10	100132406	broad.mit.edu	37	1	145367739	145367739	+	Silent	SNP	A	A	G	rs146714035	by1000genomes	TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr1:145367739A>G	ENST00000342960.5	+	83	10370	c.10335A>G	c.(10333-10335)aaA>aaG	p.K3445K	NBPF10_ENST00000369338.1_Intron|NBPF10_ENST00000369339.2_Intron	NM_001039703.4	NP_001034792.4	A6NDV3	A6NDV3_HUMAN	neuroblastoma breakpoint family, member 10	3445								p.K3445K(4)		NS(3)|breast(1)|central_nervous_system(3)|endometrium(12)|kidney(23)|lung(15)|ovary(1)|prostate(7)|skin(6)|urinary_tract(2)	73	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		ggaaggggaaaaaaagaaggg	0.413000													3	137					0	0	0.004672	0	0
DNM1P47	100216544	broad.mit.edu	37	15	102305092	102305092	+	RNA	SNP	A	A	G			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr15:102305092A>G	ENST00000561463.1	+	0	13138																											CATGAACACCATCAGCACAGC	0.632000													3	30					0	0	0.000248	0	0
ERAS	3266	broad.mit.edu	37	X	48687628	48687628	+	Missense_Mutation	SNP	G	G	A			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chrX:48687628G>A	ENST00000338270.1	+	1	346	c.95G>A	c.(94-96)cGc>cAc	p.R32H		NM_181532.2	NP_853510.1	Q7Z444	RASE_HUMAN	ES cell expressed Ras	32					small GTPase mediated signal transduction	intracellular|plasma membrane	GTP binding|GTPase activity			endometrium(2)|large_intestine(1)|lung(9)|prostate(1)|urinary_tract(1)	14						CAGGCACGCCGCAGGGATGTT	0.657000													5	17					0	0	0.000602	0	0
ZNF561	93134	broad.mit.edu	37	19	9721287	9721287	+	Silent	SNP	C	C	A			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr19:9721287C>A	ENST00000302851.3	-	6	1413	c.1050G>T	c.(1048-1050)tcG>tcT	p.S350S	ZNF561_ENST00000326044.5_3'UTR|ZNF561_ENST00000424629.1_Silent_p.S281S|ZNF561_ENST00000354661.4_Silent_p.S214S	NM_152289.2	NP_689502.2	Q8N587	ZN561_HUMAN	zinc finger protein 561	350					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(2)|endometrium(1)|kidney(2)|large_intestine(3)|lung(5)|ovary(1)	14						TAGAAAGGCCCGAGTACTGAG	0.418000													4	137					0.000602214	0.00169083	0.000602	1	0
BCLAF1	9774	broad.mit.edu	37	6	136599279	136599279	+	Missense_Mutation	SNP	A	A	G			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr6:136599279A>G	ENST00000531224.1	-	4	992	c.740T>C	c.(739-741)aTg>aCg	p.M247T	BCLAF1_ENST00000527536.1_Missense_Mutation_p.M247T|BCLAF1_ENST00000353331.4_Missense_Mutation_p.M245T|BCLAF1_ENST00000392348.2_Missense_Mutation_p.M245T|BCLAF1_ENST00000530767.1_Missense_Mutation_p.M247T|BCLAF1_ENST00000527759.1_Missense_Mutation_p.M245T	NM_001077441.1|NM_014739.2	NP_001070909.1|NP_055554.1	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1	247					induction of apoptosis|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			haematopoietic_and_lymphoid_tissue(3)|large_intestine(4)|ovary(1)|skin(1)	9	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.00226)|OV - Ovarian serous cystadenocarcinoma(155;0.00331)		TGTACTGAGCATGGGAGCATC	0.453000													20	102					0	0	0.007413	0	0
GDF10	2662	broad.mit.edu	37	10	48429292	48429292	+	Silent	SNP	G	G	A			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr10:48429292G>A	ENST00000224605.2	-	2	859	c.594C>T	c.(592-594)cgC>cgT	p.R198R		NM_004962.3	NP_004953.1	P55107	BMP3B_HUMAN	growth differentiation factor 10	198					growth|skeletal system development|transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|growth factor activity			central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(4)|lung(20)|skin(1)	31						GCCACAGGCCGCGCGGTGGGG	0.721000													24	24					0	0	0.003954	0	0
EMR2	30817	broad.mit.edu	37	19	14877869	14877869	+	Silent	SNP	G	G	A	rs138601089		TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr19:14877869G>A	ENST00000315576.3	-	6	859	c.408C>T	c.(406-408)tgC>tgT	p.C136C	EMR2_ENST00000346057.1_Silent_p.C136C|EMR2_ENST00000594076.1_Intron|EMR2_ENST00000594294.1_Silent_p.C136C|EMR2_ENST00000595839.1_Intron|EMR2_ENST00000601345.1_Silent_p.C136C|EMR2_ENST00000392965.3_Silent_p.C136C|EMR2_ENST00000353876.1_Intron|EMR2_ENST00000596991.2_Silent_p.C136C|EMR2_ENST00000392967.2_Silent_p.C136C|EMR2_ENST00000392964.3_5'UTR|EMR2_ENST00000353005.1_Intron	NM_013447.2	NP_038475.2	Q9UHX3	EMR2_HUMAN	egf-like module containing, mucin-like, hormone receptor-like 2	136	EGF-like 3; calcium-binding.				cell adhesion|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			breast(1)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(8)|lung(19)|ovary(1)|prostate(2)|skin(6)|upper_aerodigestive_tract(1)	48						GGGTGTTGACGCAGGTGCCGT	0.582000													6	7					0	0	0.006214	0	0
DNM1P47	100216544	broad.mit.edu	37	15	102305084	102305084	+	RNA	SNP	T	T	C			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr15:102305084T>C	ENST00000561463.1	+	0	13130																											GACATCAACATGAACACCATC	0.632000													4	31					0	0	0.000602	0	0
MPDZ	8777	broad.mit.edu	37	9	13219563	13219563	+	Missense_Mutation	SNP	A	A	T			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr9:13219563A>T	ENST00000319217.7	-	8	1328	c.1081T>A	c.(1081-1083)Ttg>Atg	p.L361M	MPDZ_ENST00000381015.4_Missense_Mutation_p.L361M|MPDZ_ENST00000381022.2_Missense_Mutation_p.L361M|MPDZ_ENST00000546205.1_Missense_Mutation_p.L361M|MPDZ_ENST00000447879.1_Missense_Mutation_p.L361M|MPDZ_ENST00000541718.1_Missense_Mutation_p.L361M|MPDZ_ENST00000536827.1_Missense_Mutation_p.L361M	NM_001261406.1	NP_001248335.1	O75970	MPDZ_HUMAN	multiple PDZ domain protein	361					interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			NS(1)|breast(2)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|kidney(2)|large_intestine(14)|lung(15)|ovary(5)|prostate(7)|stomach(1)|urinary_tract(2)	61				GBM - Glioblastoma multiforme(50;2.03e-06)		CTTACCCGCAACTCTGGTGTT	0.418000													17	23					0	0	0.004990	0	0
HSD17B7P2	158160	broad.mit.edu	37	10	38654432	38654432	+	RNA	SNP	A	A	G	rs2257765		TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr10:38654432A>G	ENST00000494540.1	+	0	599					NR_003086.1																						TCATCTCGCAATGCAAGGAAA	0.453000													4	49					0	0	0.000248	0	0
BMS1P20	96610	broad.mit.edu	37	22	22664606	22664606	+	RNA	SNP	A	A	G			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr22:22664606A>G	ENST00000426066.1	+	0	787					NR_027293.1																						GTCTTCATGCAAACTTGGTAT	0.398000													3	12					0	0	0.004672	0	0
F13B	2165	broad.mit.edu	37	1	197036317	197036317	+	Missense_Mutation	SNP	T	T	C			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr1:197036317T>C	ENST00000367412.1	-	1	80	c.37A>G	c.(37-39)Ata>Gta	p.I13V		NM_001994.2	NP_001985.2	P05160	F13B_HUMAN	coagulation factor XIII, B polypeptide	13					blood coagulation	extracellular region				breast(1)|central_nervous_system(1)|cervix(1)|endometrium(5)|kidney(3)|large_intestine(5)|liver(1)|lung(40)|prostate(2)|skin(4)|upper_aerodigestive_tract(3)	66						CCTGAGATTATCAATATGATG	0.299000													9	69					0	0	0.008291	0	0
CD97	976	broad.mit.edu	37	19	14507206	14507206	+	Silent	SNP	C	C	T			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr19:14507206C>T	ENST00000242786.5	+	5	479	c.399C>T	c.(397-399)tgC>tgT	p.C133C	CD97_ENST00000587728.1_Intron|CD97_ENST00000358600.3_Intron|CD97_ENST00000357355.3_Silent_p.C133C	NM_078481.3	NP_510966.1	P48960	CD97_HUMAN	CD97 molecule	133	EGF-like 3; calcium-binding (Potential).				cell adhesion|cell-cell signaling|cellular component movement|immune response|inflammatory response|neuropeptide signaling pathway	extracellular space|integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			breast(2)|endometrium(3)|kidney(1)|large_intestine(6)|liver(1)|lung(9)|ovary(3)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	30						ACGGCACCTGCGTCAACACCC	0.567000													9	117					0	0	0.008291	0	0
FN1	2335	broad.mit.edu	37	2	216262570	216262570	+	Splice_Site	SNP	A	A	C			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr2:216262570A>C	ENST00000354785.4	-	22	3719	c.3348_splice	c.e22-1	p.L1117_splice	FN1_ENST00000446046.1_Splice_Site_p.L1117_splice|FN1_ENST00000443816.1_Splice_Site_p.L1117_splice|FN1_ENST00000432072.2_Splice_Site_p.L1117_splice|FN1_ENST00000421182.1_Splice_Site_p.L1117_splice|FN1_ENST00000359671.1_Splice_Site_p.L1117_splice|FN1_ENST00000357867.4_Splice_Site_p.L1117_splice|FN1_ENST00000357009.2_Splice_Site_p.L1117_splice|FN1_ENST00000356005.4_Splice_Site_p.L1117_splice|FN1_ENST00000346544.3_Splice_Site_p.L1117_splice|FN1_ENST00000345488.5_Splice_Site_p.L1117_splice|FN1_ENST00000336916.4_Splice_Site_p.L1117_splice|FN1_ENST00000323926.6_Splice_Site_p.L1117_splice			P02751	FINC_HUMAN	fibronectin 1	1117	Fibronectin type-III 6.				acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding		FN1/ALK(2)	NS(1)|autonomic_ganglia(1)|breast(2)|central_nervous_system(7)|endometrium(9)|kidney(8)|large_intestine(33)|lung(38)|ovary(1)|pancreas(1)|prostate(3)|skin(1)|stomach(2)|upper_aerodigestive_tract(2)	109		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	TCGTACACCCAGCTAGAGGAA	0.468000													21	44					0	0	0.001523	0	0
CD74	972	broad.mit.edu	37	5	149784722	149784722	+	Missense_Mutation	SNP	A	A	T			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr5:149784722A>T	ENST00000353334.6	-	5	642	c.463T>A	c.(463-465)Tac>Aac	p.Y155N	CD74_ENST00000524315.1_Intron|CD74_ENST00000377795.3_Intron|CD74_ENST00000009530.7_Missense_Mutation_p.Y155N	NM_001025159.2|NM_004355.3	NP_001020330.1|NP_004346.1	P04233	HG2A_HUMAN	CD74 molecule, major histocompatibility complex, class II invariant chain	155					antigen processing and presentation of endogenous antigen|cell proliferation|immunoglobulin mediated immune response|intracellular protein transport|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of peptide secretion|positive regulation of B cell proliferation|positive regulation of chemokine (C-X-C motif) ligand 2 production|positive regulation of cytokine-mediated signaling pathway|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of macrophage cytokine production|positive regulation of neutrophil chemotaxis|positive regulation of peptidyl-tyrosine phosphorylation|prostaglandin biosynthetic process|protein complex assembly|regulation of macrophage activation	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|lysosome|receptor complex	beta-amyloid binding|cytokine receptor activity|identical protein binding|MHC class II protein binding			breast(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(1)	5		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AGTGGCGGGTACACCTTCAGG	0.562000			T	ROS1	NSCLC								4	78					0	0	0.001168	0	0
COL6A3	1293	broad.mit.edu	37	2	238275793	238275793	+	Silent	SNP	C	C	A			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr2:238275793C>A	ENST00000295550.4	-	11	5489	c.5037G>T	c.(5035-5037)ggG>ggT	p.G1679G	COL6A3_ENST00000353578.4_Silent_p.G1473G|COL6A3_ENST00000347401.3_Silent_p.G1478G|COL6A3_ENST00000346358.4_Silent_p.G1479G|COL6A3_ENST00000409809.1_Silent_p.G1473G|COL6A3_ENST00000472056.1_Silent_p.G1072G	NM_004369.3	NP_004360.2	P12111	CO6A3_HUMAN	collagen, type VI, alpha 3	1679	Nonhelical region.|VWFA 9.		G -> E (in BM).		axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			breast(6)|central_nervous_system(7)|cervix(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(13)|large_intestine(64)|lung(62)|ovary(14)|pancreas(2)|prostate(11)|skin(14)|stomach(2)|upper_aerodigestive_tract(6)|urinary_tract(4)	217		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		ACTGGACAAGCCCCACTTGGA	0.468000													14	16					6.81908e-15	1.99117e-14	0.002450	1	0
ACVR1B	91	broad.mit.edu	37	12	52387841	52387841	+	Missense_Mutation	SNP	C	C	T			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr12:52387841C>T	ENST00000257963.4	+	9	1542	c.1465C>T	c.(1465-1467)Cgc>Tgc	p.R489C	ACVR1B_ENST00000542485.1_Missense_Mutation_p.R437C|ACVR1B_ENST00000541224.1_Missense_Mutation_p.R530C	NM_004302.4|NM_020328.3	NP_004293.1|NP_064733.3	P36896	ACV1B_HUMAN	activin A receptor, type IB	489	Protein kinase.				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding			breast(5)|endometrium(4)|kidney(5)|large_intestine(12)|lung(10)|ovary(1)|pancreas(6)|prostate(1)	44				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	GACGGCCCTGCGCATCAAGAA	0.612000													20	73					0	0	0.001882	0	0
DNAH9	1770	broad.mit.edu	37	17	11774927	11774927	+	Missense_Mutation	SNP	G	G	A			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr17:11774927G>A	ENST00000262442.3	+	52	10134	c.10066G>A	c.(10066-10068)Gct>Act	p.A3356T	DNAH9_ENST00000454412.2_Missense_Mutation_p.A3356T	NM_001372.3	NP_001363.2	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9	3356					cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			NS(2)|autonomic_ganglia(1)|breast(15)|central_nervous_system(5)|endometrium(17)|haematopoietic_and_lymphoid_tissue(6)|kidney(17)|large_intestine(49)|liver(2)|lung(123)|ovary(6)|pancreas(1)|prostate(6)|skin(21)|stomach(2)|upper_aerodigestive_tract(13)|urinary_tract(4)	290		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		TGGAGGACTCGCTTCTGAAAA	0.493000													26	46					0	0	0.004656	0	0
C22orf42	150297	broad.mit.edu	37	22	32554980	32554980	+	Missense_Mutation	SNP	T	T	C			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr22:32554980T>C	ENST00000382097.3	-	1	295	c.223A>G	c.(223-225)Atg>Gtg	p.M75V		NM_001010859.1	NP_001010859.1	Q6IC83	CV042_HUMAN	chromosome 22 open reading frame 42	75										NS(1)|breast(2)|endometrium(3)|kidney(2)|large_intestine(2)|lung(10)|ovary(1)|prostate(1)|skin(2)	24						CCTTTGGACATCTTCAGCATC	0.547000													68	151					0	0	0.003610	0	0
KRTAP4-6	81871	broad.mit.edu	37	17	39296167	39296167	+	Silent	SNP	A	A	G			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr17:39296167A>G	ENST00000345847.4	-	1	572	c.573T>C	c.(571-573)atT>atC	p.I191I		NM_030976.1	NP_112238.1	Q9BYQ5	KRA46_HUMAN	keratin associated protein 4-6	187						keratin filament				endometrium(3)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|lung(1)|prostate(1)|urinary_tract(1)	9						GGCAGGTGGAAATGACACAGG	0.627000													3	12					0	0	0.000602	0	0
SMAP1	60682	broad.mit.edu	37	6	71508370	71508370	+	Frame_Shift_Del	DEL	A	A	-			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr6:71508370delA	ENST00000370455.3	+	6	754	c.506delA	c.(505-507)gafs	p.E169fs	SMAP1_ENST00000370452.3_Frame_Shift_Del_p.E142fs|SMAP1_ENST00000316999.5_Frame_Shift_Del_p.E142fs	NM_001044305.1	NP_001037770.1	Q8IYB5	SMAP1_HUMAN	small ArfGAP 1	169					regulation of ARF GTPase activity	plasma membrane	ARF GTPase activator activity|zinc ion binding	p.K145fs*48(1)		breast(3)|central_nervous_system(1)|endometrium(1)|large_intestine(2)|lung(6)|prostate(1)|urinary_tract(1)	15						aaagaaaaggaaaaaaaaaag	0.289													3	3	---	---	---	---					
NFIB	4781	broad.mit.edu	37	9	14125721	14125722	+	Frame_Shift_Del	DEL	AC	AC	-			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr9:14125721_14125722delAC	ENST00000380959.3	-	7	1442_1443	c.969_970delGT	c.(967-972)tttcfs	p.LF323fs	NFIB_ENST00000397581.2_Frame_Shift_Del_p.LF323fs|NFIB_ENST00000397579.2_Frame_Shift_Del_p.LF323fs|NFIB_ENST00000380934.4_Frame_Shift_Del_p.LF349fs|NFIB_ENST00000380953.1_Frame_Shift_Del_p.LF323fs|NFIB_ENST00000380924.1_Frame_Shift_Del_p.LF71fs|NFIB_ENST00000397575.3_Frame_Shift_Del_p.LF323fs|NFIB_ENST00000543693.1_Frame_Shift_Del_p.LF71fs	NM_005596.3	NP_005587.2	O00712	NFIB_HUMAN	nuclear factor I/B	323					anterior commissure morphogenesis|chondrocyte differentiation|Clara cell differentiation|commissural neuron axon guidance|DNA replication|glial cell differentiation|lung ciliated cell differentiation|negative regulation of DNA binding|negative regulation of epithelial cell proliferation involved in lung morphogenesis|negative regulation of mesenchymal cell proliferation involved in lung development|positive regulation of transcription from RNA polymerase II promoter|principal sensory nucleus of trigeminal nerve development|Type I pneumocyte differentiation|Type II pneumocyte differentiation	cerebellar mossy fiber|nucleolus|nucleus	RNA polymerase II transcription corepressor activity|sequence-specific DNA binding RNA polymerase II transcription factor activity			central_nervous_system(2)|endometrium(2)|large_intestine(7)|lung(5)|skin(1)	17				GBM - Glioblastoma multiforme(50;4.4e-08)|LUAD - Lung adenocarcinoma(58;0.119)|Lung(218;0.164)		GCAGAGCTGAACAATGGCTTTT	0.480			T	"""MYB, HGMA2"""	"""adenoid cystic carcinoma, lipoma"""								35	60	---	---	---	---					
LOC101929735	101929735	broad.mit.edu	37	14	22892201	22892202	+	RNA	INS	-	-	A			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr14:22892201_22892202insA	ENST00000514473.2	-	0	225				AE000661.37_ENST00000541008.1_RNA|AE000661.37_ENST00000545670.1_RNA|AE000661.37_ENST00000535351.1_RNA|AE000661.37_ENST00000537850.1_RNA																							actaaaaatacaaaaaaaaaaa	0.545													3	5	---	---	---	---					
CTD-2245F17.3	0	broad.mit.edu	37	19	53703995	53703995	+	RNA	DEL	T	T	-	rs113703393		TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr19:53703995delT	ENST00000597550.1	+	0	232																											TGTTTCCCCCttttttttttt	0.473													6	4	---	---	---	---					
SOX10	6663	broad.mit.edu	37	22	38370169	38370180	+	In_Frame_Del	DEL	GGGGTGGTTGGA	GGGGTGGTTGGA	-			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chr22:38370169_38370180delGGGGTGGTTGGA	ENST00000396884.2	-	4	1005_1016	c.723_734delTCCAACCACCCC	c.(721-735)ccg>cc	p.PPTTP241del	POLR2F_ENST00000407936.1_Intron|SOX10_ENST00000360880.2_In_Frame_Del_p.PPTTP241del|POLR2F_ENST00000405557.1_Intron	NM_006941.3	NP_008872.1	P56693	SOX10_HUMAN	SRY (sex determining region Y)-box 10	241						cytoplasm|nucleus	DNA binding|identical protein binding|transcription coactivator activity			NS(6)|breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(4)|skin(2)	20	Melanoma(58;0.045)					CTCTGTCTTCGGGGTGGTTGGAGGGGTGGGTG	0.646													46	135	---	---	---	---					
PLXNB3	5365	broad.mit.edu	37	X	153040467	153040468	+	Frame_Shift_Ins	INS	-	-	G			TCGA-D6-6827-01A-11D-1912-08	TCGA-D6-6827-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	059be8f9-9536-40c0-a751-5fe529a2f01f	fddb2e4f-1d76-4108-9c87-14b55cc52055	g.chrX:153040467_153040468insG	ENST00000538966.1	+	25	4404_4405	c.4133_4134insG	c.(4132-4134)gggfs	p.G1378fs	PLXNB3_ENST00000361971.5_Frame_Shift_Ins_p.G1355fs|PLXNB3_ENST00000538776.1_Frame_Shift_Ins_p.G1008fs|PLXNB3_ENST00000538282.1_Stop_Codon_Ins	NM_001163257.1	NP_001156729.1	Q9ULL4	PLXB3_HUMAN	plexin B3	1355					axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			central_nervous_system(1)|endometrium(7)|large_intestine(2)|lung(15)|prostate(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	32	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)					CCCAAGCCTGAGGGGCCAGGGG	0.688													20	15	---	---	---	---