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
EFCAB4A	283229	broad.mit.edu	37	11	828915	828915	+	Missense_Mutation	SNP	C	C	T			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr11:828915C>T	ENST00000450448.1	+	3	734	c.229C>T	c.(229-231)Cgg>Tgg	p.R77W	EFCAB4A_ENST00000525077.1_Missense_Mutation_p.R77W|EFCAB4A_ENST00000528542.2_Missense_Mutation_p.R77W|AP006621.8_ENST00000532946.1_RNA	NM_173584.3	NP_775855.3	Q8N4Y2	EFC4A_HUMAN	EF-hand calcium binding domain 4A	77	EF-hand 2.		R -> Q (in dbSNP:rs7126805).		store-operated calcium entry		calcium ion binding			endometrium(1)|large_intestine(1)|lung(1)	3		all_cancers(49;2.31e-08)|all_epithelial(84;3.72e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.179)|all_lung(207;0.227)		all cancers(45;1.45e-25)|Epithelial(43;1.17e-24)|OV - Ovarian serous cystadenocarcinoma(40;6.76e-19)|BRCA - Breast invasive adenocarcinoma(625;4.23e-05)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AAGTCTGGACCGGGCTCACAC	0.657000													7	91					0	0	0.004482	0	0
CLC	1178	broad.mit.edu	37	19	40224981	40224981	+	Missense_Mutation	SNP	G	G	A			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr19:40224981G>A	ENST00000221804.4	-	3	320	c.245C>T	c.(244-246)cCc>cTc	p.P82L		NM_001828.5	NP_001819.2	Q05315	LPPL_HUMAN	Charcot-Leyden crystal galectin	82	Galectin.				lipid catabolic process|multicellular organismal development		carboxylesterase activity|lysophospholipase activity|sugar binding			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(2)|prostate(2)|stomach(1)	12	all_cancers(60;2.99e-06)|all_lung(34;4.7e-08)|Lung NSC(34;5.46e-08)|Ovarian(47;0.06)	Renal(1328;0.000147)|Hepatocellular(1079;0.0202)|Myeloproliferative disorder(2;0.0255)	Epithelial(26;6.43e-25)|OV - Ovarian serous cystadenocarcinoma(5;1.07e-24)|all cancers(26;8.38e-23)	GBM - Glioblastoma multiforme(1328;4.97e-06)|STAD - Stomach adenocarcinoma(1328;0.00655)		ATCCTGAAAGGGCATATTCTT	0.537000													9	90					0	0	0.008291	0	0
ZSCAN32	54925	broad.mit.edu	37	16	3433182	3433182	+	Missense_Mutation	SNP	C	C	A			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr16:3433182C>A	ENST00000396852.4	-	7	2071	c.1764G>T	c.(1762-1764)caG>caT	p.Q588H	ZSCAN32_ENST00000439568.2_Missense_Mutation_p.Q299H|ZSCAN32_ENST00000304926.3_Missense_Mutation_p.Q376H|ZSCAN32_ENST00000396846.3_Missense_Mutation_p.Q588H|LA16c-306E5.2_ENST00000575785.1_RNA					zinc finger and SCAN domain containing 32																		GGCTGGAACTCTGGTTGAAGC	0.532000													18	61					7.07596e-05	0.000108498	0.006122	1	0
ABCA13	154664	broad.mit.edu	37	7	48390325	48390325	+	Silent	SNP	C	C	T			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr7:48390325C>T	ENST00000435803.1	+	30	10314	c.10290C>T	c.(10288-10290)tgC>tgT	p.C3430C		NM_152701.3	NP_689914.2	Q86UQ4	ABCAD_HUMAN	ATP-binding cassette, sub-family A (ABC1), member 13	3430					transport	integral to membrane	ATP binding|ATPase activity			breast(13)|central_nervous_system(8)|endometrium(25)|haematopoietic_and_lymphoid_tissue(4)|kidney(20)|large_intestine(51)|lung(100)|ovary(5)|pancreas(2)|prostate(22)|skin(10)|stomach(3)|upper_aerodigestive_tract(3)|urinary_tract(4)	270						TCTCTTCCTGCGTGGCACTGA	0.522000													34	70					0	0	0.003271	0	0
MFI2	4241	broad.mit.edu	37	3	196746661	196746661	+	Nonsense_Mutation	SNP	G	G	A	rs149352003		TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr3:196746661G>A	ENST00000296351.4	-	7	812	c.724C>T	c.(724-726)Cga>Tga	p.R242*	MFI2_ENST00000296350.5_Intron	NM_033316.3	NP_201573.1	P08582	TRFM_HUMAN	antigen p97 (melanoma associated) identified by monoclonal antibodies 133.2 and 96.5	587	Transferrin-like 1.				cellular iron ion homeostasis|iron ion transport	anchored to membrane|extracellular region|integral to plasma membrane	ferric iron binding|protein binding			breast(2)|endometrium(3)|kidney(2)|large_intestine(2)|lung(10)|prostate(1)	20	all_cancers(143;3.95e-09)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.55e-24)|all cancers(36;2.87e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00536)		GTTTGCCTTCGTGATGGACTT	0.468000													6	56					0	0	0.001984	0	0
SEMA3D	223117	broad.mit.edu	37	7	84651711	84651711	+	Silent	SNP	T	T	G			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr7:84651711T>G	ENST00000284136.6	-	11	1453	c.1410A>C	c.(1408-1410)ggA>ggC	p.G470G	SEMA3D_ENST00000484038.1_5'UTR	NM_152754.2	NP_689967.2	O95025	SEM3D_HUMAN	sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3D	470	Sema.				cell differentiation|nervous system development	extracellular region|membrane	receptor activity			NS(1)|breast(2)|cervix(1)|endometrium(9)|kidney(2)|large_intestine(19)|lung(29)|ovary(3)|pancreas(1)|prostate(4)|skin(2)	73						GCTTACCTGTTCCAAGAAACA	0.333000													20	124					0	0	0.008871	0	0
TUBB8P7	197331	broad.mit.edu	37	16	90161926	90161926	+	RNA	SNP	T	T	C	rs8061283	by1000genomes	TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr16:90161926T>C	ENST00000567960.1	+	0	662				TUBB8P7_ENST00000564451.1_RNA														p.I221T(3)									CCCACACCCATCTATGGTGAC	0.527000													7	34					0	0	0.001984	0	0
KIF1A	547	broad.mit.edu	37	2	241658530	241658530	+	Missense_Mutation	SNP	G	G	T			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr2:241658530G>T	ENST00000498729.2	-	47	5353	c.5107C>A	c.(5107-5109)Ccc>Acc	p.P1703T	KIF1A_ENST00000320389.7_Missense_Mutation_p.P1602T	NM_001244008.1	NP_001230937.1	Q12756	KIF1A_HUMAN	kinesin family member 1A	1602					anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			NS(1)|central_nervous_system(2)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(8)|lung(25)|ovary(1)|prostate(5)|skin(2)|urinary_tract(1)	66		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		TAGGCATAGGGGCGCCGCACC	0.617000													8	93					1.12685e-05	1.76711e-05	0.004482	1	0
MORC2	22880	broad.mit.edu	37	22	31328614	31328614	+	Missense_Mutation	SNP	A	A	C			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr22:31328614A>C	ENST00000215862.4	-	24	3842	c.2479T>G	c.(2479-2481)Tcc>Gcc	p.S827A	MORC2_ENST00000397641.2_Missense_Mutation_p.S889A	NM_014941.1	NP_055756.1	Q9Y6X9	MORC2_HUMAN	MORC family CW-type zinc finger 2	889							ATP binding|zinc ion binding			breast(2)|kidney(2)|large_intestine(5)|lung(4)|ovary(2)|pancreas(1)|skin(4)|upper_aerodigestive_tract(1)	21						AGGCATTCGGAAGTGGAGGGC	0.592000													8	62					0	0	0.003080	0	0
PLXNA1	5361	broad.mit.edu	37	3	126707784	126707784	+	Missense_Mutation	SNP	G	G	T			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr3:126707784G>T	ENST00000393409.2	+	1	348	c.348G>T	c.(346-348)aaG>aaT	p.K116N	PLXNA1_ENST00000251772.4_Missense_Mutation_p.K93N	NM_032242.3	NP_115618.3	Q9UIW2	PLXA1_HUMAN	plexin A1	116	Sema.				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			breast(3)|central_nervous_system(5)|endometrium(10)|kidney(5)|large_intestine(4)|lung(32)|ovary(2)|pancreas(1)|prostate(2)|skin(3)	67				GBM - Glioblastoma multiforme(114;0.155)		ACGTCAACAAGCTGCTGCTGC	0.647000													8	55					1.12685e-05	1.76711e-05	0.004482	1	0
ERICH1	157697	broad.mit.edu	37	8	642491	642491	+	Silent	SNP	C	C	G			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr8:642491C>G	ENST00000262109.7	-	3	368	c.291G>C	c.(289-291)ggG>ggC	p.G97G	ERICH1_ENST00000522706.1_Intron|ERICH1_ENST00000518277.1_5'UTR	NM_207332.1	NP_997215.1	Q86X53	ERIC1_HUMAN	glutamate-rich 1	97										endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(9)|pancreas(1)	20		Colorectal(14;0.158)|Ovarian(12;0.17)|Myeloproliferative disorder(644;0.185)|Hepatocellular(245;0.236)		Epithelial(5;3.29e-14)|BRCA - Breast invasive adenocarcinoma(11;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(5;3.65e-06)|READ - Rectum adenocarcinoma(1;0.0325)		CTGTGTCATCCCCGCTGGAGG	0.557000													6	88					0	0	0.001984	0	0
FRG1BP	284802	broad.mit.edu	37	20	29628263	29628263	+	Missense_Mutation	SNP	A	A	G			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr20:29628263A>G	ENST00000278882.3	+	6	645	c.265A>G	c.(265-267)Att>Gtt	p.I89V	FRG1B_ENST00000439954.2_Missense_Mutation_p.I94V|FRG1B_ENST00000358464.4_Missense_Mutation_p.I89V														p.I89V(4)		endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						TAGCTGCTTTATTAGATGCAA	0.363000													4	68					0	0	0.001984	0	0
CCL3	6348	broad.mit.edu	37	17	34416628	34416628	+	Missense_Mutation	SNP	G	G	A			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr17:34416628G>A	ENST00000225245.5	-	2	171	c.89C>T	c.(88-90)cCg>cTg	p.P30L	AC069363.1_ENST00000592728.1_RNA|AC069363.1_ENST00000441575.1_RNA|AC069363.1_ENST00000590992.1_RNA	NM_002983.2	NP_002974.1	P10147	CCL3_HUMAN	chemokine (C-C motif) ligand 3	30					cell-cell signaling|cellular calcium ion homeostasis|cellular component movement|cytoskeleton organization|exocytosis|G-protein coupled receptor protein signaling pathway|immune response|inflammatory response|regulation of viral genome replication	extracellular space|soluble fraction	chemoattractant activity|chemokine activity|signal transducer activity			breast(2)|lung(3)|urinary_tract(1)	6		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		GCAGGCGGTCGGCGTGTCAGC	0.552000													14	147					0	0	0.001855	0	0
RUNX1T1	862	broad.mit.edu	37	8	92988161	92988161	+	Silent	SNP	G	G	A			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr8:92988161G>A	ENST00000523629.1	-	10	1774	c.1320C>T	c.(1318-1320)taC>taT	p.Y440Y	RUNX1T1_ENST00000422361.2_Silent_p.Y403Y|RUNX1T1_ENST00000436581.2_Silent_p.Y451Y|RUNX1T1_ENST00000396218.1_Silent_p.Y413Y|RUNX1T1_ENST00000360348.2_Silent_p.Y403Y|RUNX1T1_ENST00000265814.3_Silent_p.Y440Y|GS1-5L10.1_ENST00000522980.1_RNA|RUNX1T1_ENST00000518844.1_Silent_p.Y413Y|RUNX1T1_ENST00000520724.1_Silent_p.Y403Y	NM_001198626.1|NM_001198630.1|NM_001198633.1|NM_175634.2	NP_001185555.1|NP_001185559.1|NP_001185562.1|NP_783552.1	Q06455	MTG8_HUMAN	runt-related transcription factor 1; translocated to, 1 (cyclin D-related)	440					generation of precursor metabolites and energy	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			NS(1)|breast(3)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(17)|lung(54)|pancreas(1)|skin(3)|upper_aerodigestive_tract(2)	86			BRCA - Breast invasive adenocarcinoma(11;0.0141)			CCTCTGGCACGTATCCAGACG	0.483000													25	143					0	0	0.007291	0	0
UGT2B4	7363	broad.mit.edu	37	4	70355227	70355227	+	Missense_Mutation	SNP	G	G	A			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr4:70355227G>A	ENST00000305107.6	-	3	978	c.932C>T	c.(931-933)tCg>tTg	p.S311L	UGT2B4_ENST00000512583.1_Missense_Mutation_p.S311L|UGT2B4_ENST00000506580.1_5'UTR|UGT2B4_ENST00000381096.3_Missense_Mutation_p.S175L	NM_021139.2	NP_066962.2	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2 family, polypeptide B4	311					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			autonomic_ganglia(1)|breast(1)|central_nervous_system(2)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(29)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	47						ACTGACCATCGACCCCAGAGA	0.373000													40	166					0	0	0.003610	0	0
FAM188B	84182	broad.mit.edu	37	7	30830851	30830851	+	Missense_Mutation	SNP	G	G	A			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr7:30830851G>A	ENST00000265299.6	+	5	811	c.734G>A	c.(733-735)aGc>aAc	p.S245N	INMT-FAM188B_ENST00000458257.1_3'UTR	NM_032222.2	NP_115598.2	Q4G0A6	F188B_HUMAN	family with sequence similarity 188, member B	245										endometrium(1)|large_intestine(5)|lung(19)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29						CAAGAAGAGAGCCGGAAGGTC	0.547000													16	133					0	0	0.004007	0	0
C15orf32	145858	broad.mit.edu	37	15	93015669	93015669	+	Silent	SNP	G	G	A			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr15:93015669G>A	ENST00000333334.2	+	1	786	c.291G>A	c.(289-291)ctG>ctA	p.L97L	C15orf32_ENST00000556865.1_Silent_p.L97L	NM_153040.2	NP_694585.1	Q32M92	CO032_HUMAN	chromosome 15 open reading frame 32	97										endometrium(1)|large_intestine(2)|lung(5)|ovary(1)|prostate(1)|skin(2)	12	Lung NSC(78;0.0893)|all_lung(78;0.125)		BRCA - Breast invasive adenocarcinoma(143;0.0493)|OV - Ovarian serous cystadenocarcinoma(32;0.125)			GTTTGATGCTGAAGCCAACAT	0.428000													4	75					0	0	0.000602	0	0
SCUBE3	222663	broad.mit.edu	37	6	35209013	35209013	+	Missense_Mutation	SNP	C	C	T			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr6:35209013C>T	ENST00000274938.7	+	10	1165	c.1165C>T	c.(1165-1167)Cgg>Tgg	p.R389W	SCUBE3_ENST00000394681.1_Missense_Mutation_p.R405W	NM_152753.2	NP_689966.2	Q8IX30	SCUB3_HUMAN	signal peptide, CUB domain, EGF-like 3	389	EGF-like 9; calcium-binding (Potential).				protein heterooligomerization|protein homooligomerization	cell surface|extracellular region	calcium ion binding|protein binding			breast(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(1)|large_intestine(12)|lung(11)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	37						AGGCCAGGGTCGGCTGCACTG	0.582000											OREG0017372	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	99					0	0	0.002450	0	0
CPT1A	1374	broad.mit.edu	37	11	68548198	68548198	+	Silent	SNP	C	C	T			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr11:68548198C>T	ENST00000265641.5	-	12	1522	c.1368G>A	c.(1366-1368)tcG>tcA	p.S456S	CPT1A_ENST00000540367.1_Silent_p.S456S|CPT1A_ENST00000539743.1_Silent_p.S456S|CPT1A_ENST00000376618.2_Silent_p.S456S	NM_001876.3	NP_001867.2	P50416	CPT1A_HUMAN	carnitine palmitoyltransferase 1A (liver)	456					carnitine shuttle|fatty acid beta-oxidation	integral to membrane|mitochondrial outer membrane	carnitine O-palmitoyltransferase activity			NS(2)|breast(1)|endometrium(2)|kidney(1)|large_intestine(7)|liver(1)|lung(17)|ovary(3)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	42	Esophageal squamous(3;3.28e-14)		LUAD - Lung adenocarcinoma(13;0.0676)|STAD - Stomach adenocarcinoma(18;0.142)		L-Carnitine(DB00583)|Perhexiline(DB01074)	CAAACGTGAACGACTTGTCAA	0.493000													15	53					0	0	0.004990	0	0
NR6A1	2649	broad.mit.edu	37	9	127287138	127287138	+	Missense_Mutation	SNP	T	T	G			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr9:127287138T>G	ENST00000487099.2	-	9	1373	c.1216A>C	c.(1216-1218)Acc>Ccc	p.T406P	NR6A1_ENST00000344523.4_Missense_Mutation_p.T405P|NR6A1_ENST00000416460.2_Missense_Mutation_p.T401P|NR6A1_ENST00000373584.3_Missense_Mutation_p.T402P	NM_001278546.1	NP_001265475.1	Q15406	NR6A1_HUMAN	nuclear receptor subfamily 6, group A, member 1	406					cell proliferation|negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|spermatogenesis	transcription factor complex	protein homodimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			NS(1)|breast(1)|cervix(1)|large_intestine(4)|lung(5)|ovary(3)|prostate(1)|skin(1)	17						GAGGCACTGGTCAGACCCCTG	0.413000													11	22					0	0	0.000978	0	0
STC2	8614	broad.mit.edu	37	5	172755126	172755126	+	Missense_Mutation	SNP	C	C	A			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr5:172755126C>A	ENST00000265087.4	-	1	1380	c.71G>T	c.(70-72)gGg>gTg	p.G24V		NM_003714.2	NP_003705.1	O76061	STC2_HUMAN	stanniocalcin 2	24					cell surface receptor linked signaling pathway|cell-cell signaling	extracellular region	hormone activity			endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(4)|lung(10)|ovary(1)|prostate(1)|skin(3)	25	Renal(175;0.000159)|Lung NSC(126;0.00229)|all_lung(126;0.004)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|Ovarian(839;0.223)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			GGCGTCGGTCCCCCGCGCCGG	0.637000													18	78					3.32936e-07	5.46966e-07	0.006122	1	0
TP53	7157	broad.mit.edu	37	17	7578212	7578212	+	Nonsense_Mutation	SNP	G	G	A			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr17:7578212G>A	ENST00000420246.2	-	6	769	c.637C>T	c.(637-639)Cga>Tga	p.R213*	TP53_ENST00000445888.2_Nonsense_Mutation_p.R213*|TP53_ENST00000269305.4_Nonsense_Mutation_p.R213*|TP53_ENST00000574684.1_Intron|TP53_ENST00000359597.4_Nonsense_Mutation_p.R213*|TP53_ENST00000413465.2_Nonsense_Mutation_p.R213*|TP53_ENST00000455263.2_Nonsense_Mutation_p.R213*	NM_001126114.2|NM_001276696.1	NP_001119586.1|NP_001263625.1	P04637	P53_HUMAN	tumor protein p53	213	Interaction with AXIN1 (By similarity).|Interaction with HIPK1 (By similarity).|Required for interaction with FBXO42.		R -> G (in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|R -> P (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> Q (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> W (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R213*(250)|p.R81*(21)|p.R120*(21)|p.0?(8)|p.?(5)|p.R213G(5)|p.R213fs*35(3)|p.R213fs*34(3)|p.D208_V216delDRNTFRHSV(1)|p.R120G(1)|p.D207_R213delDDRNTFR(1)|p.T211_S215delTFRHS(1)|p.R81fs*>11(1)|p.D208fs*1(1)|p.R120fs*35(1)|p.R81G(1)|p.R209_R213delRNTFR(1)|p.R213fs*2(1)|p.T211fs*28(1)|p.R213_S215>X(1)|p.D207_V216del10(1)|p.R213R(1)|p.R213fs*32(1)|p.R209fs*6(1)|p.R213W(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ACACTATGTCGAAAAGTGTTT	0.532000		111	"""Mis, N, F"""		"""breast, colorectal, lung, sarcoma, adrenocortical, glioma, multiple other tumour types"""	"""breast, sarcoma, adrenocortical carcinoma, glioma, multiple other tumour types"""		Other conserved DNA damage response genes	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, Familial Clustering of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			16	9					0	0	0.006122	0	0
PIAS4	51588	broad.mit.edu	37	19	4013192	4013192	+	Missense_Mutation	SNP	C	C	T	rs2289867		TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr19:4013192C>T	ENST00000262971.2	+	2	414	c.299C>T	c.(298-300)cCg>cTg	p.P100L		NM_015897.2	NP_056981.2	Q8N2W9	PIAS4_HUMAN	protein inhibitor of activated STAT, 4	100					positive regulation of protein sumoylation|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|PML body	DNA binding|SUMO ligase activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)|endometrium(7)|kidney(1)|large_intestine(1)|lung(3)|pancreas(1)|skin(3)	17				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)		CCCAGGACTCCGCTGGCAGGC	0.652000													5	88					0	0	0.000602	0	0
SKIV2L	6499	broad.mit.edu	37	6	31928456	31928456	+	Silent	SNP	A	A	G			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr6:31928456A>G	ENST00000375394.2	+	6	596	c.483A>G	c.(481-483)gaA>gaG	p.E161E	SKIV2L_ENST00000488648.1_3'UTR|SKIV2L_ENST00000544581.1_Intron	NM_006929.4	NP_008860.4	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like (S. cerevisiae)	161						nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			breast(1)|central_nervous_system(1)|large_intestine(1)|ovary(1)	4						GGATGGATGAACCCACCATAA	0.527000													36	127					0	0	0.008740	0	0
SEPT4	5414	broad.mit.edu	37	17	56604314	56604314	+	Missense_Mutation	SNP	G	G	A			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr17:56604314G>A	ENST00000426861.1	-	2	115	c.29C>T	c.(28-30)aCg>aTg	p.T10M	RP11-112H10.4_ENST00000580769.1_RNA|SEPT4_ENST00000580791.1_5'UTR|SEPT4_ENST00000317268.3_Missense_Mutation_p.T29M|RP11-112H10.4_ENST00000580589.1_RNA|SEPT4_ENST00000579371.1_Intron|SEPT4_ENST00000393086.1_Missense_Mutation_p.T10M|RP11-112H10.4_ENST00000578022.1_RNA|SEPT4_ENST00000580844.1_Intron|SEPT4_ENST00000457347.2_Missense_Mutation_p.T44M|SEPT4_ENST00000412945.3_Missense_Mutation_p.T21M|SEPT4_ENST00000317256.6_Missense_Mutation_p.T10M|SEPT4_ENST00000580809.1_Intron|SEPT4_ENST00000583114.1_De_novo_Start_InFrame	NM_080415.2	NP_536340.1	O43236	SEPT4_HUMAN	septin 4	29					apoptosis|cell cycle|cytokinesis|regulation of apoptosis	cytoskeleton|mitochondrion|nucleus	GTP binding|GTPase activity|protein binding|structural molecule activity			NS(1)|endometrium(2)|kidney(2)|large_intestine(5)|lung(4)|ovary(1)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	18	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TCCATCATCCGTGGTGTCCTC	0.582000													13	129					0	0	0.003163	0	0
TNR	7143	broad.mit.edu	37	1	175334302	175334302	+	Silent	SNP	T	T	G			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr1:175334302T>G	ENST00000367674.1	-	12	3139	c.2431A>C	c.(2431-2433)Agg>Cgg	p.R811R	TNR_ENST00000263525.2_Silent_p.R811R	NM_003285.2	NP_003276.3	Q92752	TENR_HUMAN	tenascin R	811	Fibronectin type-III 6.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				NS(3)|breast(7)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(29)|lung(98)|ovary(4)|pancreas(5)|prostate(4)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(1)	177	Renal(580;0.146)					TCCTCATCCCTGGGGCTGTAG	0.522000													17	48					0	0	0.004990	0	0
APCDD1L	164284	broad.mit.edu	37	20	57035926	57035926	+	Missense_Mutation	SNP	G	G	C			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr20:57035926G>C	ENST00000371149.3	-	4	1656	c.1426C>G	c.(1426-1428)Ccc>Gcc	p.P476A	APCDD1L_ENST00000439429.1_Missense_Mutation_p.P487A	NM_153360.1	NP_699191.1	Q8NCL9	APCDL_HUMAN	adenomatosis polyposis coli down-regulated 1-like	476						integral to membrane				large_intestine(8)|lung(7)|ovary(1)|prostate(1)|skin(1)	18	Lung NSC(12;0.000856)|all_lung(29;0.0025)		BRCA - Breast invasive adenocarcinoma(13;5.6e-11)|Epithelial(14;1.67e-07)|all cancers(14;1.48e-06)			CCTGTGCTGGGGTGCTTCTGC	0.612000													12	55					0	0	0.001368	0	0
KRT28	162605	broad.mit.edu	37	17	38950249	38950249	+	Missense_Mutation	SNP	G	G	A			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr17:38950249G>A	ENST00000306658.7	-	6	1093	c.1028C>T	c.(1027-1029)aCg>aTg	p.T343M		NM_181535.3	NP_853513.2	Q7Z3Y7	K1C28_HUMAN	keratin 28	343	Coil 2.|Rod.					cytoplasm|intermediate filament	structural molecule activity			NS(1)|breast(3)|endometrium(1)|kidney(1)|large_intestine(4)|lung(14)|ovary(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(1)	30		Breast(137;0.000301)				CGCCAGCTGCGTACAGTAGTT	0.572000													39	154					0	0	0.006230	0	0
UCP3	7352	broad.mit.edu	37	11	73717220	73717220	+	Missense_Mutation	SNP	C	C	T			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr11:73717220C>T	ENST00000314032.4	-	3	883	c.331G>A	c.(331-333)Gcg>Acg	p.A111T	UCP3_ENST00000426995.2_Missense_Mutation_p.A111T|UCP3_ENST00000348534.4_Missense_Mutation_p.A111T	NM_003356.3	NP_003347.1	P55916	UCP3_HUMAN	uncoupling protein 3 (mitochondrial, proton carrier)	111					mitochondrial transport|respiratory electron transport chain|respiratory gaseous exchange	integral to membrane|mitochondrial inner membrane	binding			central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(4)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)	12	Breast(11;2.08e-05)					TCACTGTCCGCGCCTTTGGGG	0.612000													15	34					0	0	0.004990	0	0
ALOXE3	59344	broad.mit.edu	37	17	8000028	8000028	+	Missense_Mutation	SNP	C	C	T			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr17:8000028C>T	ENST00000380149.1	-	15	2551	c.2521G>A	c.(2521-2523)Gac>Aac	p.D841N	ALOXE3_ENST00000448843.2_Missense_Mutation_p.D685N|ALOXE3_ENST00000318227.3_Missense_Mutation_p.D817N			Q9BYJ1	LOXE3_HUMAN	arachidonate lipoxygenase 3	685					leukotriene biosynthetic process		iron ion binding|lipoxygenase activity			breast(4)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(7)|lung(7)|ovary(2)|pancreas(1)|prostate(1)|skin(4)	31						TCCTGGATGTCCCTTGAGATC	0.632000													7	138					0	0	0.001984	0	0
ANKRD30BP2	149992	broad.mit.edu	37	21	14414844	14414844	+	RNA	SNP	T	T	C	rs148060711	by1000genomes	TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr21:14414844T>C	ENST00000507941.1	+	0	95																											ACTGGGCCTGTGCCAATGGCC	0.433000													4	63					0	0	0.000602	0	0
ZSCAN2	54993	broad.mit.edu	37	15	85165178	85165178	+	Silent	SNP	G	G	A			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr15:85165178G>A	ENST00000448803.2	+	3	2044	c.1752G>A	c.(1750-1752)aaG>aaA	p.K584K	ZSCAN2_ENST00000538076.1_Intron|ZSCAN2_ENST00000485222.2_Intron|ZSCAN2_ENST00000358472.3_Silent_p.K434K|ZSCAN2_ENST00000327179.6_Silent_p.K583K|ZSCAN2_ENST00000546148.1_Silent_p.K584K|ZSCAN2_ENST00000541040.1_Intron	NM_181877.3	NP_870992.2	Q7Z7L9	ZSCA2_HUMAN	zinc finger and SCAN domain containing 2	584					cell differentiation|multicellular organismal development|spermatogenesis|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)|central_nervous_system(1)|kidney(2)|large_intestine(7)|liver(2)|lung(4)|ovary(1)|pancreas(1)	19				UCEC - Uterine corpus endometrioid carcinoma (272;0.168)|all cancers(203;5.43e-22)		CTGGGGAGAAGCCCTACAAAT	0.483000													10	71					0	0	0.006214	0	0
SKIV2L	6499	broad.mit.edu	37	6	31931705	31931705	+	Silent	SNP	C	C	T			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr6:31931705C>T	ENST00000375394.2	+	16	1776	c.1663C>T	c.(1663-1665)Ctg>Ttg	p.L555L	SKIV2L_ENST00000544581.1_Silent_p.L362L	NM_006929.4	NP_008860.4	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like (S. cerevisiae)	555						nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			breast(1)|central_nervous_system(1)|large_intestine(1)|ovary(1)	4						CGGAGTGTACCTGTCCCTCCT	0.622000													66	165					0	0	0.003610	0	0
NUAK2	81788	broad.mit.edu	37	1	205290569	205290569	+	Missense_Mutation	SNP	G	G	A			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr1:205290569G>A	ENST00000367157.3	-	1	314	c.188C>T	c.(187-189)aCc>aTc	p.T63I		NM_030952.1	NP_112214.1	Q9H093	NUAK2_HUMAN	NUAK family, SNF1-like kinase, 2	63	Protein kinase.				actin cytoskeleton organization|apoptosis|cellular response to glucose starvation|negative regulation of apoptosis		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			breast(3)|kidney(3)|large_intestine(4)|lung(4)|ovary(3)|prostate(3)|skin(1)|stomach(1)|urinary_tract(1)	23	Breast(84;0.186)		BRCA - Breast invasive adenocarcinoma(75;0.117)			CTTCCCGTAGGTGCCTTTGCC	0.697000													7	42					0	0	0.004482	0	0
UPF3A	65110	broad.mit.edu	37	13	115048325	115048325	+	Missense_Mutation	SNP	C	C	T			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr13:115048325C>T	ENST00000375299.3	+	3	384	c.328C>T	c.(328-330)Ctc>Ttc	p.L110F	UPF3A_ENST00000351487.5_Missense_Mutation_p.L110F	NM_023011.3	NP_075387.1	Q9H1J1	REN3A_HUMAN	UPF3 regulator of nonsense transcripts homolog A (yeast)	110	Required for interaction with UPF2.				mRNA transport|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation	cytoplasm|nucleus|plasma membrane	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			autonomic_ganglia(1)|central_nervous_system(2)|kidney(2)|large_intestine(2)|lung(3)|prostate(2)|skin(3)|upper_aerodigestive_tract(1)	16	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)	OV - Ovarian serous cystadenocarcinoma(48;0.195)|Epithelial(10;0.2)		TTATCCTCATCTCTACTCAAG	0.343000													8	45					0	0	0.000978	0	0
HRNR	388697	broad.mit.edu	37	1	152188526	152188527	+	Frame_Shift_Ins	INS	-	-	G	rs145041332		TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr1:152188526_152188527insG	ENST00000368801.2	-	3	5653_5654	c.5578_5579insC	c.(5578-5580)acafs	p.T1860fs	FLG-AS1_ENST00000593011.1_RNA|FLG-AS1_ENST00000420707.1_RNA	NM_001009931.1	NP_001009931.1	Q86YZ3	HORN_HUMAN	hornerin	1860					keratinization		calcium ion binding|protein binding			autonomic_ganglia(1)|breast(6)|central_nervous_system(2)|cervix(2)|endometrium(22)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(19)|liver(1)|lung(84)|ovary(5)|prostate(6)|skin(12)|stomach(9)|upper_aerodigestive_tract(5)|urinary_tract(6)	192	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGACCCATGTCGGCCACTGCTG	0.594													12	793	---	---	---	---					
AASDH	132949	broad.mit.edu	37	4	57220269	57220269	+	Frame_Shift_Del	DEL	A	A	-	rs148777026		TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr4:57220269delA	ENST00000205214.6	-	8	1499	c.1319delT	c.(1318-1320)tgfs	p.L440fs	AASDH_ENST00000451613.1_Frame_Shift_Del_p.L440fs|AASDH_ENST00000513376.1_Frame_Shift_Del_p.L340fs|AASDH_ENST00000602986.1_Frame_Shift_Del_p.L287fs|AASDH_ENST00000502617.1_Frame_Shift_Del_p.L440fs|AASDH_ENST00000434343.2_Intron	NM_181806.2	NP_861522.2	Q4L235	ACSF4_HUMAN	aminoadipate-semialdehyde dehydrogenase	440					fatty acid metabolic process		acid-thiol ligase activity|acyl carrier activity|ATP binding|cofactor binding	p.?(1)		endometrium(2)|kidney(2)|large_intestine(8)|lung(17)|ovary(4)|prostate(3)|skin(2)|stomach(1)|urinary_tract(1)	40	Glioma(25;0.08)|all_neural(26;0.101)	all_hematologic(202;0.0017)				TTTTCGTCCCAAAAAAAAAAT	0.363													8	48	---	---	---	---					
HLA-V	352962	broad.mit.edu	37	6	29760353	29760373	+	RNA	DEL	GCGGGCGCCGTGGATGGAGCA	GCGGGCGCCGTGGATGGAGCA	-	rs74661005	by1000genomes	TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr6:29760353_29760373delGCGGGCGCCGTGGATGGAGCA	ENST00000457107.1	+	0	223_243																											GGATGGAGCCGCGGGCGCCGTGGATGGAGCAGGAGGGGCCG	0.674													2	4	---	---	---	---					
ZDHHC4	55146	broad.mit.edu	37	7	6621848	6621849	+	Frame_Shift_Ins	INS	-	-	T	rs34551853		TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr7:6621848_6621849insT	ENST00000396706.2	+	5	779_780	c.336_337insT	c.(334-339)ctttttfs	p.LF112fs	ZDHHC4_ENST00000405731.3_Frame_Shift_Ins_p.LF112fs|ZDHHC4_ENST00000335965.6_Frame_Shift_Ins_p.LF112fs|ZDHHC4_ENST00000396709.1_Frame_Shift_Ins_p.LF112fs|ZDHHC4_ENST00000396707.2_Frame_Shift_Ins_p.LF112fs|ZDHHC4_ENST00000396713.2_Frame_Shift_Ins_p.LF112fs|AC079742.4_ENST00000434951.1_RNA			Q9NPG8	ZDHC4_HUMAN	zinc finger, DHHC-type containing 4	112						integral to membrane	acyltransferase activity|zinc ion binding	p.F115fs*3(2)		breast(2)|endometrium(2)|kidney(1)|large_intestine(3)|lung(5)|ovary(1)|pancreas(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	19		Ovarian(82;0.232)		UCEC - Uterine corpus endometrioid carcinoma (126;0.1)		GTGTAAACCTGTTTTTTTTCAC	0.450													7	256	---	---	---	---					
CDKN2A	1029	broad.mit.edu	37	9	21971048	21971058	+	Frame_Shift_Del	DEL	GCCGCGCCCCG	GCCGCGCCCCG	-	rs137854598		TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr9:21971048_21971058delGCCGCGCCCCG	ENST00000579755.1	-	2	635_645	c.343_353delCGGGGCGCGGC	c.(343-354)tfs	p.RGAA115fs	CDKN2A_ENST00000578845.2_Frame_Shift_Del_p.AGARL49fs|CDKN2A_ENST00000479692.2_Frame_Shift_Del_p.AGARL49fs|CDKN2A_ENST00000498628.2_Frame_Shift_Del_p.AGARL49fs|CDKN2A_ENST00000530628.2_Frame_Shift_Del_p.RGAA115fs|CDKN2A_ENST00000579122.1_Frame_Shift_Del_p.AGARL100fs|CDKN2A_ENST00000497750.1_Frame_Shift_Del_p.AGARL49fs|CDKN2A_ENST00000304494.5_Frame_Shift_Del_p.AGARL100fs|CDKN2A_ENST00000494262.1_Frame_Shift_Del_p.AGARL49fs|RP11-145E5.5_ENST00000404796.2_Intron|CDKN2A_ENST00000446177.1_Frame_Shift_Del_p.AGARL100fs|CDKN2A_ENST00000498124.1_Frame_Shift_Del_p.AGARL100fs|CDKN2A_ENST00000361570.3_Frame_Shift_Del_p.RGAA156fs			P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A	131					cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein kinase binding	p.0?(1315)|p.?(44)|p.A102V(3)|p.G101G(3)|p.A102A(2)|p.A102E(2)|p.L104fs*42(2)|p.H83fs*2(2)|p.R103Q(1)|p.A102fs*18(1)|p.R103R(1)|p.A102P(1)|p.0(1)|p.R103fs*43(1)|p.T93_D105del(1)|p.G101W(1)|p.A68fs*3(1)|p.A102T(1)|p.G101fs*17(1)|p.A102fs*42(1)		NS(28)|adrenal_gland(6)|autonomic_ganglia(11)|biliary_tract(74)|bone(84)|breast(46)|central_nervous_system(522)|cervix(23)|endometrium(14)|eye(4)|genital_tract(15)|haematopoietic_and_lymphoid_tissue(698)|kidney(39)|large_intestine(11)|liver(92)|lung(365)|meninges(18)|oesophagus(239)|ovary(98)|pancreas(263)|pleura(94)|prostate(13)|salivary_gland(10)|skin(541)|small_intestine(1)|soft_tissue(93)|stomach(48)|thymus(4)|thyroid(24)|upper_aerodigestive_tract(436)|urinary_tract(283)|vulva(2)	4199		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CGCACGTCCAGCCGCGCCCCGGCCCGGTGCA	0.758		17								HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			7	38	---	---	---	---					
NPIPB1P	729602	broad.mit.edu	37	18	11625378	11625379	+	RNA	INS	-	-	A	rs141097667		TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr18:11625378_11625379insA	ENST00000547442.1	-	0	621																											CTCTTCCCCCGAAAAATGACAA	0.401													3	5	---	---	---	---					
MAPRE1	22919	broad.mit.edu	37	20	31424527	31424528	+	Frame_Shift_Del	DEL	TA	TA	-	rs142135206		TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chr20:31424527_31424528delTA	ENST00000375571.5	+	4	494_495	c.355_356delTA	c.(355-357)tfs	p.Y119fs		NM_012325.2	NP_036457.1	Q15691	MARE1_HUMAN	microtubule-associated protein, RP/EB family, member 1	119					cell division|cell proliferation|G2/M transition of mitotic cell cycle|mitotic prometaphase|negative regulation of microtubule polymerization|protein localization to microtubule	centrosome|cortical microtubule cytoskeleton|cytosol	microtubule plus-end binding|protein C-terminus binding			endometrium(2)|large_intestine(1)|lung(3)|prostate(2)	8						CGATGCAAACTATGATGGAAAA	0.411													14	111	---	---	---	---					
ZNF185	7739	broad.mit.edu	37	X	152083334	152083334	+	Frame_Shift_Del	DEL	A	A	-			TCGA-CQ-6229-01A-11D-1912-08	TCGA-CQ-6229-10A-01D-1912-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	07e76152-9e83-42a5-9111-c39a2310a2e4	ab416480-3676-4775-92ba-fddf2deda045	g.chrX:152083334delA	ENST00000535861.1	+	2	163	c.115delA	c.(115-117)agfs	p.K39fs	ZNF185_ENST00000318504.7_Frame_Shift_Del_p.K39fs|ZNF185_ENST00000539731.1_Frame_Shift_Del_p.K39fs|ZNF185_ENST00000449285.2_Frame_Shift_Del_p.K39fs|ZNF185_ENST00000324823.6_5'UTR|ZNF185_ENST00000370268.4_Frame_Shift_Del_p.K39fs	NM_001178106.1	NP_001171577.1	O15231	ZN185_HUMAN	zinc finger protein 185 (LIM domain)	39						cytoplasm|cytoskeleton|focal adhesion	zinc ion binding			NS(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(3)|ovary(3)	12	Acute lymphoblastic leukemia(192;6.56e-05)					GAAGGGGGACAAGAGCTGGAT	0.607													2	4	---	---	---	---