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
MYLK2	85366	broad.mit.edu	37	20	30409489	30409489	+	Missense_Mutation	SNP	G	G	A			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr20:30409489G>A	ENST00000375994.2	+	3	994	c.721G>A	c.(721-723)Ggg>Agg	p.G241R	MYLK2_ENST00000375985.4_Missense_Mutation_p.G241R			Q9H1R3	MYLK2_HUMAN	myosin light chain kinase 2	241					cardiac muscle tissue morphogenesis|regulation of muscle filament sliding		ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			NS(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(4)|lung(17)|ovary(1)|pancreas(1)|prostate(1)|skin(2)	33			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			ATCCGAGGTGGGGCAGGCCCT	0.652000													45	59					0	0	1	0	0
SIRPA	140885	broad.mit.edu	37	20	1895812	1895812	+	Missense_Mutation	SNP	G	G	T			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr20:1895812G>T	ENST00000358771.4	+	2	299	c.147G>T	c.(145-147)gaG>gaT	p.E49D	SIRPA_ENST00000356025.3_Missense_Mutation_p.E49D|SIRPA_ENST00000400068.3_Missense_Mutation_p.E49D	NM_001040023.1	NP_001035112.1	P78324	SHPS1_HUMAN	signal-regulatory protein alpha	49	Ig-like V-type.				blood coagulation|cell adhesion|cell junction assembly|leukocyte migration	integral to membrane|plasma membrane	SH3 domain binding			cervix(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(13)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(1)	21				Colorectal(46;0.018)|READ - Rectum adenocarcinoma(1;0.0556)		CAGCTGGAGAGACAGCCACTC	0.552000													15	22					1.3612e-06	1.42452e-06	1	1	0
SLC45A2	51151	broad.mit.edu	37	5	33944917	33944917	+	Missense_Mutation	SNP	C	C	T			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr5:33944917C>T	ENST00000296589.4	-	7	1575	c.1429G>A	c.(1429-1431)Gcc>Acc	p.A477T	SLC45A2_ENST00000342059.3_Missense_Mutation_p.A418T	NM_016180.3	NP_057264.3	Q9UMX9	S45A2_HUMAN	solute carrier family 45, member 2	477			A -> T (in OCA4).		melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane		p.A477T(1)		breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(25)|ovary(3)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	48						GTGAGGGTGGCGCAGTCCATG	0.607000													10	10					0	0	1	0	0
FCRL3	115352	broad.mit.edu	37	1	157666001	157666001	+	Missense_Mutation	SNP	A	A	G			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr1:157666001A>G	ENST00000368184.3	-	7	1252	c.961T>C	c.(961-963)Tcc>Ccc	p.S321P	FCRL3_ENST00000368186.5_Missense_Mutation_p.S321P|FCRL3_ENST00000473231.1_5'UTR|RP11-367J7.3_ENST00000453692.1_RNA	NM_052939.3	NP_443171.2	Q96P31	FCRL3_HUMAN	Fc receptor-like 3	321	Ig-like C2-type 4.					integral to membrane|plasma membrane	receptor activity			autonomic_ganglia(1)|breast(3)|endometrium(7)|kidney(1)|large_intestine(13)|lung(31)|ovary(3)|prostate(3)|skin(5)|upper_aerodigestive_tract(2)	69	all_hematologic(112;0.0378)					TTGTGCCAGGAGAATGTGACA	0.522000													33	60					0	0	1	0	0
PCDHGC4	0	broad.mit.edu	37	5	140865402	140865402	+	Missense_Mutation	SNP	C	C	T			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr5:140865402C>T	ENST00000306593.1	+	1	662	c.662C>T	c.(661-663)cCg>cTg	p.P221L	PCDHGC3_ENST00000308177.3_Intron|PCDHGB3_ENST00000576222.1_Intron|PCDHGA2_ENST00000394576.2_Intron|PCDHGA4_ENST00000571252.1_Intron|PCDHGB1_ENST00000523390.1_Intron|PCDHGB2_ENST00000522605.1_Intron|PCDHGA3_ENST00000253812.6_Intron|PCDHGA9_ENST00000573521.1_Intron|PCDHGB4_ENST00000519479.1_Intron|PCDHGA7_ENST00000518325.1_Intron|PCDHGA11_ENST00000518882.1_Intron|PCDHGA5_ENST00000518069.1_Intron|PCDHGA12_ENST00000252085.3_Intron|PCDHGA1_ENST00000517417.1_Intron|PCDHGA11_ENST00000398587.2_Intron|PCDHGB7_ENST00000398594.2_Intron|PCDHGA6_ENST00000517434.1_Intron|PCDHGA8_ENST00000398604.2_Intron|PCDHGB6_ENST00000520790.1_Intron|PCDHGA10_ENST00000398610.2_Intron	NM_018928.2|NM_032406.1	NP_061751.1|NP_115782.1														NS(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(13)|lung(13)|ovary(5)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	42			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGAACCCGCCGAGATCTGGC	0.602000													11	18					0	0	1	0	0
NAA25	80018	broad.mit.edu	37	12	112528660	112528660	+	Silent	SNP	C	C	T			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr12:112528660C>T	ENST00000261745.4	-	3	401	c.153G>A	c.(151-153)aaG>aaA	p.K51K		NM_024953.3	NP_079229.2	Q14CX7	NAA25_HUMAN	N(alpha)-acetyltransferase 25, NatB auxiliary subunit	51						cytoplasm	protein binding			autonomic_ganglia(1)|breast(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(10)|liver(1)|lung(14)|ovary(1)|pancreas(1)|prostate(3)|upper_aerodigestive_tract(1)|urinary_tract(4)	46						AACCAATTGCCTTTAAAACCT	0.398000													33	47					0	0	1	0	0
SLC25A32	81034	broad.mit.edu	37	8	104413832	104413832	+	Missense_Mutation	SNP	T	T	C			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr8:104413832T>C	ENST00000297578.4	-	6	890	c.724A>G	c.(724-726)Aca>Gca	p.T242A	SLC25A32_ENST00000543107.1_Missense_Mutation_p.T110A|SLC25A32_ENST00000523701.1_5'UTR	NM_030780.3	NP_110407.2	Q9H2D1	MFTC_HUMAN	solute carrier family 25 (mitochondrial folate carrier), member 32	242					folic acid metabolic process|mitochondrial transport	integral to membrane|mitochondrial inner membrane	binding|folic acid transporter activity			central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(2)|ovary(1)|pancreas(1)|upper_aerodigestive_tract(2)	9			OV - Ovarian serous cystadenocarcinoma(57;2.79e-06)|STAD - Stomach adenocarcinoma(118;0.197)		Folic Acid(DB00158)	TATGGGTATGTTGCTGCGACA	0.378000													21	92					0	0	1	0	0
SERPINB10	5273	broad.mit.edu	37	18	61585257	61585257	+	Missense_Mutation	SNP	A	A	G			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr18:61585257A>G	ENST00000238508.3	+	4	352	c.293A>G	c.(292-294)gAa>gGa	p.E98G		NM_005024.1	NP_005015.1			serpin peptidase inhibitor, clade B (ovalbumin), member 10											breast(1)|endometrium(3)|kidney(2)|large_intestine(6)|lung(6)|prostate(1)|skin(3)|stomach(2)	24		Esophageal squamous(42;0.131)				CTTATCTCAGAAATCCTCAAG	0.348000													22	42					0	0	1	0	0
RPS2	6187	broad.mit.edu	37	16	2014492	2014492	+	Silent	SNP	G	G	A			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr16:2014492G>A	ENST00000529806.1	-	1	321	c.135C>T	c.(133-135)ggC>ggT	p.G45G	RPS2_ENST00000343262.4_Silent_p.G45G|RPS2_ENST00000530225.1_Silent_p.G45G|RPS2_ENST00000526522.1_Silent_p.G45G			P15880	RS2_HUMAN	ribosomal protein S2	45					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleoplasm	fibroblast growth factor 1 binding|fibroblast growth factor 3 binding|RNA binding|structural constituent of ribosome			endometrium(1)|kidney(1)|large_intestine(2)|lung(1)|urinary_tract(2)	7						CGCGGCCTCGGCCCCGGCCCC	0.766000													11	7					0	0	1	0	0
SMG7	9887	broad.mit.edu	37	1	183486931	183486931	+	Missense_Mutation	SNP	G	G	C			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr1:183486931G>C	ENST00000367537.3	+	5	570	c.375G>C	c.(373-375)gaG>gaC	p.E125D	SMG7_ENST00000456731.2_Missense_Mutation_p.E54D|SMG7_ENST00000515829.2_Missense_Mutation_p.E96D|SMG7_ENST00000508461.1_Missense_Mutation_p.E54D|SMG7_ENST00000507469.1_Missense_Mutation_p.E96D|SMG7_ENST00000347615.2_Missense_Mutation_p.E96D			Q92540	SMG7_HUMAN	SMG7 nonsense mediated mRNA decay factor	96					mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|intermediate filament cytoskeleton|nucleus	protein phosphatase 2A binding			breast(1)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(7)|lung(16)|prostate(3)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	46						TGTTCCTAGAGGCAGCTAGTG	0.423000													36	52					0	0	1	0	0
CACNG5	27091	broad.mit.edu	37	17	64876773	64876773	+	Missense_Mutation	SNP	C	C	T	rs149159754		TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr17:64876773C>T	ENST00000533854.1	+	4	620	c.383C>T	c.(382-384)aCg>aTg	p.T128M	CACNG5_ENST00000169565.3_Missense_Mutation_p.T128M|CACNG5_ENST00000307139.3_Missense_Mutation_p.T128M			Q9UF02	CCG5_HUMAN	calcium channel, voltage-dependent, gamma subunit 5	128					regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|cell junction|postsynaptic density|postsynaptic membrane	voltage-gated calcium channel activity			NS(1)|cervix(1)|endometrium(2)|kidney(3)|large_intestine(7)|lung(6)|pancreas(1)|prostate(1)|skin(2)	24			BRCA - Breast invasive adenocarcinoma(6;1.61e-08)			CCCCACCGGACGATACTGGCC	0.448000													5	158					0	0	1	0	0
FRG1B	0	broad.mit.edu	37	20	29628299	29628299	+	Missense_Mutation	SNP	A	A	G			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr20:29628299A>G	ENST00000278882.3	+	6	681	c.301A>G	c.(301-303)Agt>Ggt	p.S101G	FRG1B_ENST00000439954.2_Missense_Mutation_p.S106G|FRG1B_ENST00000358464.4_Missense_Mutation_p.S101G																endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						AGAAGCAAAAAGTAAAACAGC	0.363000													3	57					0	0	1	0	0
PLEKHA7	144100	broad.mit.edu	37	11	16816175	16816175	+	Missense_Mutation	SNP	G	G	C			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr11:16816175G>C	ENST00000355661.3	-	19	2615	c.2605C>G	c.(2605-2607)Ccc>Gcc	p.P869A	PLEKHA7_ENST00000532079.1_Intron|PLEKHA7_ENST00000448080.2_Missense_Mutation_p.P869A|PLEKHA7_ENST00000531066.1_Missense_Mutation_p.P869A			Q6IQ23	PKHA7_HUMAN	pleckstrin homology domain containing, family A member 7	869	Pro-rich.				epithelial cell-cell adhesion|zonula adherens maintenance	centrosome|zonula adherens	delta-catenin binding			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(7)|lung(13)|ovary(1)|prostate(2)|skin(7)|urinary_tract(1)	37						GGGCTGGTGGGAGGACTGGGC	0.602000													3	82					0	0	1	0	0
FRG1B	0	broad.mit.edu	37	20	29625877	29625877	+	Missense_Mutation	SNP	G	G	A	rs7266938	by1000genomes	TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr20:29625877G>A	ENST00000278882.3	+	5	501	c.121G>A	c.(121-123)Gcc>Acc	p.A41T	FRG1B_ENST00000439954.2_Missense_Mutation_p.A46T|FRG1B_ENST00000358464.4_Missense_Mutation_p.A41T														p.A41T(2)		endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						GTACAGAATCGCCCTGAAATC	0.358000													9	75					0	0	1	0	0
TAGAP	117289	broad.mit.edu	37	6	159457441	159457441	+	Silent	SNP	G	G	A			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr6:159457441G>A	ENST00000367066.3	-	10	1945	c.1614C>T	c.(1612-1614)caC>caT	p.H538H	RP1-111C20.4_ENST00000607391.1_RNA|RP1-111C20.4_ENST00000606470.1_RNA|TAGAP_ENST00000326965.6_Silent_p.H360H|RP1-111C20.4_ENST00000606466.1_RNA|RP1-111C20.4_ENST00000607796.1_RNA	NM_054114.3	NP_473455.2	Q8N103	TAGAP_HUMAN	T-cell activation RhoGTPase activating protein	538					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|guanyl-nucleotide exchange factor activity			NS(1)|autonomic_ganglia(1)|endometrium(3)|large_intestine(8)|lung(7)|ovary(2)|skin(1)	23		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.16e-16)|BRCA - Breast invasive adenocarcinoma(81;5.87e-06)		CCCTCGGGACGTGGTCCCTGG	0.547000													5	62					0	0	1	0	0
LINC00969	0	broad.mit.edu	37	3	195395402	195395402	+	RNA	SNP	C	C	A	rs149044725	by1000genomes	TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr3:195395402C>A	ENST00000445430.1	+	0	809																											TACGGGCGCACCTACTTGAGC	0.597000													7	26					4.3838e-07	4.69693e-07	1	1	0
UTP20	27340	broad.mit.edu	37	12	101773277	101773277	+	Missense_Mutation	SNP	A	A	G			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr12:101773277A>G	ENST00000261637.4	+	57	7699	c.7525A>G	c.(7525-7527)Aaa>Gaa	p.K2509E		NM_014503.2	NP_055318.2	O75691	UTP20_HUMAN	UTP20, small subunit (SSU) processome component, homolog (yeast)	2509					endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|negative regulation of cell proliferation	90S preribosome|cytoplasm|nucleolus|nucleoplasm|preribosome, small subunit precursor|small-subunit processome	protein binding			NS(3)|biliary_tract(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(9)|kidney(2)|large_intestine(26)|lung(30)|ovary(2)|prostate(3)|skin(1)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	88						CAAAAAGACCAAAAAACACCT	0.453000													25	42					0	0	1	0	0
MZT2B	80097	broad.mit.edu	37	2	130948170	130948170	+	Missense_Mutation	SNP	G	G	C			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr2:130948170G>C	ENST00000281871.6	+	3	803	c.448G>C	c.(448-450)Ggg>Cgg	p.G150R	MZT2B_ENST00000409255.1_Missense_Mutation_p.G210R	NM_025029.3	NP_079305.2	Q6NZ67	MZT2B_HUMAN	mitotic spindle organizing protein 2B	150						centrosome|gamma-tubulin ring complex|spindle	protein binding			lung(1)	1						GGGCGGGCCTGGGAAGAGCCC	0.612000													34	9					0	0	1	0	0
SMARCA2	6595	broad.mit.edu	37	9	2115841	2115841	+	Missense_Mutation	SNP	G	G	A			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr9:2115841G>A	ENST00000382203.1	+	25	3685	c.3476G>A	c.(3475-3477)cGa>cAa	p.R1159Q	SMARCA2_ENST00000382194.1_Missense_Mutation_p.R1159Q|SMARCA2_ENST00000349721.2_Missense_Mutation_p.R1159Q|SMARCA2_ENST00000357248.2_Missense_Mutation_p.R1159Q			P51531	SMCA2_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2	1159	Helicase C-terminal.				chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			breast(1)|central_nervous_system(1)|endometrium(7)|kidney(3)|large_intestine(11)|liver(2)|lung(19)|ovary(3)|pancreas(1)|prostate(3)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(2)	56		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		GCCCAAGACCGAGCTCACCGC	0.577000													10	14					0	0	1	0	0
MLLT3	4300	broad.mit.edu	37	9	20414343	20414343	+	Silent	SNP	A	A	G			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr9:20414343A>G	ENST00000380338.4	-	5	787	c.501T>C	c.(499-501)agT>agC	p.S167S	MLLT3_ENST00000355930.6_5'UTR|MLLT3_ENST00000429426.2_Silent_p.S164S|MLLT3_ENST00000475957.1_5'UTR	NM_004529.2	NP_004520.2	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 3	167	Poly-Ser.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding	p.S167S(19)		central_nervous_system(1)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(6)|lung(24)|ovary(1)|prostate(4)|skin(1)|urinary_tract(7)	66				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		tgctgctgctactgctgctgc	0.532000			T	MLL	ALL								3	50					0	0	1	0	0
SLC16A4	9122	broad.mit.edu	37	1	110924399	110924399	+	Missense_Mutation	SNP	A	A	C			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr1:110924399A>C	ENST00000369779.4	-	4	488	c.239T>G	c.(238-240)aTt>aGt	p.I80S	SLC16A4_ENST00000497687.1_Intron|SLC16A4_ENST00000369781.4_Missense_Mutation_p.I80S|SLC16A4_ENST00000437429.2_Intron|SLC16A4_ENST00000541986.1_Missense_Mutation_p.I18S|SLC16A4_ENST00000472422.2_Intron	NM_001201547.1|NM_004696.2	NP_001188476.1|NP_004687.1	O15374	MOT5_HUMAN	solute carrier family 16, member 4	80						integral to plasma membrane|membrane fraction	monocarboxylic acid transmembrane transporter activity|symporter activity			breast(1)|endometrium(1)|kidney(4)|large_intestine(2)|lung(2)|ovary(3)|prostate(1)|stomach(2)	16		all_cancers(81;0.000476)|all_epithelial(167;0.000401)|all_lung(203;0.00277)|Lung NSC(277;0.0043)		Lung(183;0.0251)|all cancers(265;0.0766)|Epithelial(280;0.0807)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.14)	Pyruvic acid(DB00119)	TATGTCACAAATAATAGCAAC	0.408000													19	22					0	0	1	0	0
CNR2	1269	broad.mit.edu	37	1	24201287	24201287	+	Missense_Mutation	SNP	C	C	G			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr1:24201287C>G	ENST00000536471.1	-	3	1079	c.821G>C	c.(820-822)aGt>aCt	p.S274T	CNR2_ENST00000374472.4_Missense_Mutation_p.S274T			P34972	CNR2_HUMAN	cannabinoid receptor 2 (macrophage)	274					behavior|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|inflammatory response	dendrite|integral to plasma membrane|perikaryon	cannabinoid receptor activity			breast(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|lung(9)|pancreas(1)|skin(2)|stomach(6)|upper_aerodigestive_tract(2)	26		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Ovarian(437;0.00348)|Breast(348;0.00957)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.32e-24)|Colorectal(126;6.09e-08)|COAD - Colon adenocarcinoma(152;3.33e-06)|GBM - Glioblastoma multiforme(114;2.9e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|KIRC - Kidney renal clear cell carcinoma(1967;0.00359)|STAD - Stomach adenocarcinoma(196;0.0131)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.146)	Nabilone(DB00486)	GACCTGGTCACTGAGCGTAGT	0.572000													15	18					0	0	1	0	0
APOB	338	broad.mit.edu	37	2	21234067	21234067	+	Silent	SNP	A	A	G			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr2:21234067A>G	ENST00000233242.1	-	26	5800	c.5673T>C	c.(5671-5673)caT>caC	p.H1891H		NM_000384.2	NP_000375.2	P04114	APOB_HUMAN	apolipoprotein B	1891					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			NS(5)|autonomic_ganglia(1)|breast(6)|central_nervous_system(4)|cervix(3)|endometrium(19)|kidney(10)|large_intestine(63)|liver(5)|lung(125)|ovary(16)|pancreas(1)|prostate(5)|skin(31)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(6)	305	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	CATTGCTGAAATGCAGTGAGT	0.488000													5	90					0	0	1	0	0
MLX	6945	broad.mit.edu	37	17	40723602	40723602	+	Missense_Mutation	SNP	T	T	G			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr17:40723602T>G	ENST00000246912.4	+	8	931	c.878T>G	c.(877-879)tTg>tGg	p.L293W	MLX_ENST00000346833.4_Missense_Mutation_p.L209W|MLX_ENST00000435881.2_Missense_Mutation_p.L239W	NM_170607.2	NP_733752.1	Q9UH92	MLX_HUMAN	MLX, MAX dimerization protein	293					energy reserve metabolic process|negative regulation of transcription, DNA-dependent|positive regulation of cellular metabolic process	cytoplasm|nucleus	DNA binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			kidney(3)|large_intestine(4)|lung(1)|ovary(1)|urinary_tract(1)	10		all_cancers(22;4.26e-05)|Breast(137;0.000153)|all_epithelial(22;0.00148)		BRCA - Breast invasive adenocarcinoma(366;0.129)		CTGCACCAATTGAAAAACCAG	0.532000													18	120					0	0	1	0	0
ASAP1	50807	broad.mit.edu	37	8	131073151	131073151	+	Missense_Mutation	SNP	G	G	A			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr8:131073151G>A	ENST00000357668.1	-	27	2893	c.2866C>T	c.(2866-2868)Ccg>Tcg	p.P956S	ASAP1_ENST00000518721.1_Missense_Mutation_p.P956S			Q9ULH1	ASAP1_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH domain 1	956	Pro-rich.				cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding	p.P956S(1)		breast(5)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(13)|lung(22)|ovary(6)|pancreas(1)|prostate(1)|skin(3)|stomach(1)	68						GGCTTAGGCGGCAAATCTCCA	0.572000													4	180					0	0	1	0	0
SPEG	10290	broad.mit.edu	37	2	220309783	220309783	+	Missense_Mutation	SNP	G	G	A			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr2:220309783G>A	ENST00000312358.7	+	3	847	c.715G>A	c.(715-717)Gtg>Atg	p.V239M	SPEG_ENST00000396698.1_Missense_Mutation_p.V135M|SPEG_ENST00000396695.2_Intron	NM_005876.4	NP_005867.3	Q15772	SPEG_HUMAN	SPEG complex locus	239					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			breast(2)|central_nervous_system(3)|endometrium(10)|kidney(2)|large_intestine(9)|lung(42)|ovary(5)|pancreas(1)|prostate(8)|skin(1)|stomach(9)|upper_aerodigestive_tract(4)|urinary_tract(4)	100		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		AGCTAATCTGGTGGGCGCAAG	0.682000													4	1					0	0	1	0	0
SLC26A4	5172	broad.mit.edu	37	7	107314687	107314687	+	Missense_Mutation	SNP	G	G	A			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr7:107314687G>A	ENST00000265715.3	+	5	718	c.494G>A	c.(493-495)aGc>aAc	p.S165N		NM_000441.1	NP_000432.1	O43511	S26A4_HUMAN	solute carrier family 26 (anion exchanger), member 4	165					regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			central_nervous_system(2)|endometrium(1)|kidney(5)|large_intestine(8)|lung(16)|ovary(3)|prostate(1)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(2)	46						CTCGTATCCAGCAGCAATGGA	0.463000									Pendred syndrome				41	36					0	0	1	0	0
FHOD3	80206	broad.mit.edu	37	18	34081915	34081915	+	Missense_Mutation	SNP	G	G	A			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr18:34081915G>A	ENST00000257209.4	+	4	480	c.358G>A	c.(358-360)Gga>Aga	p.G120R	FHOD3_ENST00000590592.1_Missense_Mutation_p.G120R|FHOD3_ENST00000445677.1_Missense_Mutation_p.G120R|FHOD3_ENST00000359247.4_Missense_Mutation_p.G120R	NM_025135.2	NP_079411.2	Q2V2M9	FHOD3_HUMAN	formin homology 2 domain containing 3	120	GBD/FH3.				actin cytoskeleton organization	cytoplasm|cytoskeleton	actin binding			NS(1)|breast(5)|central_nervous_system(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(25)|liver(2)|lung(29)|ovary(3)|prostate(4)|skin(5)|upper_aerodigestive_tract(1)	90		all_epithelial(2;0.0181)|Colorectal(2;0.0195)				CAACTCCAGCGGACGAGATTT	0.323000													14	23					0	0	1	0	0
OR5A1	219982	broad.mit.edu	37	11	59211157	59211157	+	Silent	SNP	C	C	T	rs150991894		TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr11:59211157C>T	ENST00000302030.2	+	1	541	c.516C>T	c.(514-516)tgC>tgT	p.C172C		NM_001004728.1	NP_001004728.1	Q8NGJ0	OR5A1_HUMAN	olfactory receptor, family 5, subfamily A, member 1	172					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity	p.C172C(2)		central_nervous_system(1)|endometrium(3)|large_intestine(2)|lung(14)|ovary(2)|prostate(2)|skin(3)|stomach(1)	28						TTCACTTTTGCGGACCCAACA	0.547000													5	233					0	0	1	0	0
SERPINI2	5276	broad.mit.edu	37	3	167170724	167170724	+	Splice_Site	SNP	C	C	A			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr3:167170724C>A	ENST00000476257.1	-	7	1262	c.964_splice	c.e7+1	p.D322_splice	SERPINI2_ENST00000264677.4_Splice_Site_p.D322_splice|SERPINI2_ENST00000461846.1_Splice_Site_p.D322_splice|SERPINI2_ENST00000471111.1_Splice_Site_p.D322_splice			O75830	SPI2_HUMAN	serpin peptidase inhibitor, clade I (pancpin), member 2	322					cellular component movement|regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			NS(1)|breast(1)|endometrium(2)|kidney(4)|large_intestine(6)|lung(20)|prostate(1)|skin(5)|urinary_tract(1)	41						ATCATACTACCTGTTATTCCA	0.318000													25	71					1.64293e-13	1.80322e-13	1	1	0
CDH12	1010	broad.mit.edu	37	5	21752061	21752061	+	Missense_Mutation	SNP	T	T	C			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr5:21752061T>C	ENST00000382254.1	-	15	3256	c.2170A>G	c.(2170-2172)Aat>Gat	p.N724D	CDH12_ENST00000521384.1_5'UTR|CDH12_ENST00000522262.1_Missense_Mutation_p.N684D|CDH12_ENST00000504376.2_Missense_Mutation_p.N724D|RP11-804N13.1_ENST00000522350.1_RNA	NM_004061.3	NP_004052.2	P55289	CAD12_HUMAN	cadherin 12, type 2 (N-cadherin 2)	724					adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			NS(2)|breast(2)|cervix(1)|endometrium(6)|kidney(4)|large_intestine(19)|lung(75)|ovary(2)|prostate(3)|skin(2)|stomach(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	120						TCCACATCATTTTCCTGTAGC	0.483000										HNSCC(59;0.17)			19	38					0	0	1	0	0
ARID1A	8289	broad.mit.edu	37	1	27087548	27087548	+	Nonsense_Mutation	SNP	C	C	T			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr1:27087548C>T	ENST00000324856.7	+	5	2493	c.2122C>T	c.(2122-2124)Cag>Tag	p.Q708*	ARID1A_ENST00000457599.2_Nonsense_Mutation_p.Q708*|ARID1A_ENST00000374152.2_Nonsense_Mutation_p.Q325*	NM_006015.4	NP_006006.3	O14497	ARI1A_HUMAN	AT rich interactive domain 1A (SWI-like)	708					androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding	p.Q708*(1)	ARID1A/MAST2_ENST00000361297(2)	NS(1)|autonomic_ganglia(1)|biliary_tract(1)|breast(13)|central_nervous_system(6)|cervix(2)|endometrium(56)|haematopoietic_and_lymphoid_tissue(8)|kidney(10)|large_intestine(41)|liver(31)|lung(34)|ovary(130)|pancreas(18)|prostate(8)|skin(9)|stomach(14)|upper_aerodigestive_tract(4)|urinary_tract(24)	411		all_cancers(24;6.36e-27)|all_epithelial(13;5.93e-24)|Colorectal(325;3.46e-05)|all_lung(284;4.76e-05)|Lung NSC(340;5.83e-05)|Breast(348;9.7e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;2.61e-56)|Epithelial(14;7.53e-55)|OV - Ovarian serous cystadenocarcinoma(117;4.5e-30)|Colorectal(126;2.07e-09)|COAD - Colon adenocarcinoma(152;4.29e-07)|BRCA - Breast invasive adenocarcinoma(304;4.13e-05)|STAD - Stomach adenocarcinoma(196;0.000279)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0469)|Lung(427;0.167)|LUSC - Lung squamous cell carcinoma(448;0.242)		CAGTGTTGCTCAGTCTCGCTC	0.592000			"""Mis, N, F, S, D"""		"""clear cell ovarian carcinoma, RCC"""								4	37					0	0	1	0	0
GADL1	339896	broad.mit.edu	37	3	30885877	30885877	+	Splice_Site	SNP	A	A	G			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr3:30885877A>G	ENST00000454381.3	-	7	778		c.e7+1		GADL1_ENST00000282538.5_Splice_Site			Q6ZQY3	GADL1_HUMAN	glutamate decarboxylase-like 1						carboxylic acid metabolic process		carboxy-lyase activity|pyridoxal phosphate binding			breast(2)|endometrium(3)|kidney(2)|lung(17)|upper_aerodigestive_tract(1)	25					Pyridoxal Phosphate(DB00114)	TGTTCCCATTACCTTCCATCT	0.393000													53	65					0	0	1	0	0
CCR2	729230	broad.mit.edu	37	3	46399066	46399066	+	Missense_Mutation	SNP	C	C	A			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr3:46399066C>A	ENST00000292301.4	+	2	533	c.48C>A	c.(46-48)agC>agA	p.S16R	CCR2_ENST00000465202.1_Intron|CCR2_ENST00000400888.2_Missense_Mutation_p.S16R|CCR2_ENST00000445132.2_Missense_Mutation_p.S16R	NM_001123041.2	NP_001116513.2	P41597	CCR2_HUMAN	chemokine (C-C motif) receptor 2	16					astrocyte cell migration|blood vessel remodeling|cellular defense response|chemokine-mediated signaling pathway|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|immune response|inflammatory response|interspecies interaction between organisms|JAK-STAT cascade|monocyte extravasation|negative regulation of adenylate cyclase activity|negative regulation of angiogenesis|negative regulation of eosinophil degranulation|negative regulation of type 2 immune response|positive regulation of alpha-beta T cell proliferation|positive regulation of immune complex clearance by monocytes and macrophages|positive regulation of inflammatory response|positive regulation of interferon-gamma production|positive regulation of interleukin-2 production|positive regulation of monocyte chemotaxis|positive regulation of T cell chemotaxis|positive regulation of T cell extravasation|positive regulation of T-helper 1 type immune response|positive regulation of tumor necrosis factor biosynthetic process|regulation of vascular endothelial growth factor production|T-helper 17 cell chemotaxis	cytosol|dendrite|integral to plasma membrane|perikaryon|perinuclear region of cytoplasm|soluble fraction	C-C chemokine receptor activity|CCR2 chemokine receptor binding|protein homodimerization activity			breast(3)|endometrium(1)|large_intestine(1)|liver(2)|lung(7)	14				BRCA - Breast invasive adenocarcinoma(193;0.00114)|KIRC - Kidney renal clear cell carcinoma(197;0.0174)|Kidney(197;0.0206)		CCAACGAGAGCGGTGAAGAAG	0.463000													81	116					2.35497e-27	2.64934e-27	1	1	0
LINC00969	0	broad.mit.edu	37	3	195395399	195395399	+	RNA	SNP	G	G	A	rs62287990	by1000genomes	TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr3:195395399G>A	ENST00000445430.1	+	0	806																											GGCTACGGGCGCACCTACTTG	0.607000													7	26					0	0	1	0	0
SF3B1	23451	broad.mit.edu	37	2	198266834	198266834	+	Missense_Mutation	SNP	T	T	C			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr2:198266834T>C	ENST00000335508.5	-	15	2189	c.2098A>G	c.(2098-2100)Aaa>Gaa	p.K700E	SF3B1_ENST00000462613.1_5'UTR	NM_012433.2	NP_036565.2	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1, 155kDa	700					nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding	p.K700E(179)|p.Q699_K700del(2)		NS(35)|breast(10)|central_nervous_system(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(524)|kidney(4)|large_intestine(10)|lung(19)|ovary(1)|pancreas(4)|prostate(6)|salivary_gland(1)|skin(4)|testis(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	633			OV - Ovarian serous cystadenocarcinoma(117;0.246)			GTCCGAACTTTCTGCTGCTCA	0.408000			Mis		myelodysplastic syndrome								23	24					0	0	1	0	0
CALB2	794	broad.mit.edu	37	16	71411574	71411574	+	Missense_Mutation	SNP	C	C	T			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr16:71411574C>T	ENST00000302628.4	+	4	343	c.266C>T	c.(265-267)gCg>gTg	p.A89V	CALB2_ENST00000349553.5_Missense_Mutation_p.A89V	NM_001740.4	NP_001731.2	P22676	CALB2_HUMAN	calbindin 2	89	EF-hand 2.						calcium ion binding			NS(1)|breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(3)|lung(7)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)	18		Ovarian(137;0.125)				TCACAGCTGGCGCAGATCCTG	0.557000													6	41					0	0	1	0	0
TECRL	253017	broad.mit.edu	37	4	65175614	65175614	+	Missense_Mutation	SNP	C	C	A			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr4:65175614C>A	ENST00000381210.3	-	6	697	c.587G>T	c.(586-588)cGa>cTa	p.R196L	TECRL_ENST00000507440.1_Missense_Mutation_p.R196L|TECRL_ENST00000513125.1_5'UTR	NM_001010874.4	NP_001010874.2	Q5HYJ1	TECRL_HUMAN	trans-2,3-enoyl-CoA reductase-like	196					lipid metabolic process	cytoplasm|integral to membrane	oxidoreductase activity, acting on the CH-CH group of donors	p.R196P(1)		endometrium(2)|kidney(5)|large_intestine(7)|lung(30)|prostate(1)|skin(1)|stomach(1)	47						CAAAAGGTATCGGATGTAGTG	0.343000													5	78					0.00198382	0.0020289	1	1	0
LCMT2	9836	broad.mit.edu	37	15	43622404	43622404	+	Missense_Mutation	SNP	A	A	C			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr15:43622404A>C	ENST00000305641.5	-	1	399	c.284T>G	c.(283-285)cTc>cGc	p.L95R	LCMT2_ENST00000567039.1_Intron|LCMT2_ENST00000544735.1_Intron	NM_014793.4	NP_055608.2	O60294	LCMT2_HUMAN	leucine carboxyl methyltransferase 2	95					tRNA processing		methyltransferase activity|protein binding			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(2)|liver(1)|lung(9)|skin(1)|urinary_tract(1)	20		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;8.1e-07)	L-Leucine(DB00149)	GCGAAAATAGAGCGAGTCGAA	0.642000													16	29					0	0	1	0	0
SCLT1	132320	broad.mit.edu	37	4	129924994	129924995	+	Frame_Shift_Ins	INS	-	-	T			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr4:129924994_129924995insT	ENST00000281142.5	-	6	830_831	c.327_328insA	c.(325-330)aatggafs	p.NG109fs	SCLT1_ENST00000434680.1_Frame_Shift_Ins_p.NG109fs|SCLT1_ENST00000503215.1_Frame_Shift_Ins_p.NG86fs|SCLT1_ENST00000439369.2_Intron	NM_144643.2	NP_653244.2	Q96NL6	SCLT1_HUMAN	sodium channel and clathrin linker 1	109						centrosome				central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(9)|lung(10)|ovary(3)|prostate(1)|skin(1)|stomach(1)	29						AAGGCCTCCAATTTTTTTTCAA	0.381													7	88	---	---	---	---					
ARID2	196528	broad.mit.edu	37	12	46287432	46287435	+	Frame_Shift_Del	DEL	TAAC	TAAC	-			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr12:46287432_46287435delTAAC	ENST00000334344.6	+	20	5463_5466	c.5291_5294delTAAC	c.(5290-5295)atfs	p.IT1764fs	ARID2_ENST00000422737.1_Frame_Shift_Del_p.IT1615fs|ARID2_ENST00000479608.1_3'UTR|ARID2_ENST00000457135.1_Frame_Shift_Del_p.IT372fs|ARID2_ENST00000444670.1_Frame_Shift_Del_p.IT1374fs	NM_152641.2	NP_689854.2	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1764					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			NS(1)|autonomic_ganglia(1)|breast(7)|central_nervous_system(3)|cervix(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(21)|liver(20)|lung(34)|ovary(7)|pancreas(1)|prostate(2)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	116	Lung SC(27;0.192)|Renal(347;0.236)	Lung NSC(34;0.106)|all_lung(34;0.22)	OV - Ovarian serous cystadenocarcinoma(5;0.00691)	GBM - Glioblastoma multiforme(48;0.0153)		GAGGGACCAATAACTAAACACATC	0.333			"""N, S, F"""		hepatocellular carcinoma								50	68	---	---	---	---					
FOXA1	3169	broad.mit.edu	37	14	38061223	38061228	+	In_Frame_Del	DEL	TCTCGA	TCTCGA	-			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr14:38061223_38061228delTCTCGA	ENST00000250448.2	-	2	822_827	c.761_766delTCGAGA	c.(760-768)tac>t	p.FEN254del	FOXA1_ENST00000545425.2_5'UTR|FOXA1_ENST00000540786.1_In_Frame_Del_p.FEN221del	NM_004496.3	NP_004487.2	P55317	FOXA1_HUMAN	forkhead box A1	254					chromatin remodeling|embryo development|epithelial cell maturation involved in prostate gland development|epithelial tube branching involved in lung morphogenesis|epithelial-mesenchymal signaling involved in prostate gland development|glucose homeostasis|lung epithelial cell differentiation|negative regulation of survival gene product expression|neuron fate specification|pattern specification process|positive regulation of estrogen receptor signaling pathway|positive regulation of mitotic cell cycle|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|prostate gland epithelium morphogenesis|prostate gland stromal morphogenesis|response to estradiol stimulus|secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus development	transcription factor complex	DNA bending activity|double-stranded DNA binding|protein domain specific binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|transcription regulatory region DNA binding			breast(1)|endometrium(1)|large_intestine(2)|lung(3)|prostate(12)	19	Breast(36;0.0954)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;5.41e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.0454)|LUSC - Lung squamous cell carcinoma(13;0.0917)|all cancers(34;0.0925)|BRCA - Breast invasive adenocarcinoma(188;0.239)	GBM - Glioblastoma multiforme(112;0.0222)		TAGCAGCCGTTCTCGAACATGTTGCC	0.689													11	12	---	---	---	---					
ZFHX3	463	broad.mit.edu	37	16	72831173	72831189	+	Frame_Shift_Del	DEL	GGGATGTAGAAAGGGAA	GGGATGTAGAAAGGGAA	-			TCGA-2A-A8VX-01A-11D-A377-08	TCGA-2A-A8VX-10A-01D-A37A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	957baedd-a3e5-4cc3-84bc-d96a98047c96	53b1cab7-43d1-4643-ac22-c93696c913ee	g.chr16:72831173_72831189delGGGATGTAGAAAGGGAA	ENST00000268489.5	-	9	6064_6080	c.5392_5408delTTCCCTTTCTACATCCC	c.(5392-5409)cfs	p.FPFYIP1798fs	ZFHX3_ENST00000397992.5_Frame_Shift_Del_p.FPFYIP884fs	NM_006885.3	NP_008816.3	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3	1798					muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding			NS(3)|breast(7)|cervix(2)|endometrium(18)|haematopoietic_and_lymphoid_tissue(5)|kidney(8)|large_intestine(22)|liver(1)|lung(46)|ovary(5)|pancreas(1)|prostate(15)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(11)	153		Ovarian(137;0.13)				CTCAGCACTGGGGATGTAGAAAGGGAAGAGGAGGTGC	0.576													20	37	---	---	---	---