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_status	validation_method	validation_tumor_sample	validation_alt_allele	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
PRAMEF11	440560	broad.mit.edu	37	1	12885051	12885051	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:12885051T>C	uc001auk.2	-	4	1256	c.1060A>G	c.(1060-1062)ACC>GCC	p.T354A		NM_001146344	NP_001139816	O60813	PRA11_HUMAN	PRAME family member 11	354	LRR 6.										0						TTCTCCAGGGTGGCCATGCAG	0.532													12	163					0	0	0.008871	0	0
TAS1R2	80834	broad.mit.edu	37	1	19181078	19181078	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:19181078C>T	uc001bba.1	-	3	887	c.886G>A	c.(886-888)GCC>ACC	p.A296T		NM_152232	NP_689418	Q8TE23	TS1R2_HUMAN	taste receptor, type 1, member 2 precursor	296	Extracellular (Potential).				detection of chemical stimulus involved in sensory perception of sweet taste	plasma membrane	protein heterodimerization activity|taste receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4		Colorectal(325;3.46e-05)|all_lung(284;0.000321)|Lung NSC(340;0.000398)|Renal(390;0.000518)|Breast(348;0.000812)|Ovarian(437;0.00764)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00466)|BRCA - Breast invasive adenocarcinoma(304;3.56e-05)|Kidney(64;0.000177)|KIRC - Kidney renal clear cell carcinoma(64;0.00262)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)	Aspartame(DB00168)	ATCCACACGGCGCCAGTGAAG	0.637													11	43					0	0	0.002450	0	0
SNRNP40	9410	broad.mit.edu	37	1	31744294	31744294	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:31744294T>C	uc001bso.2	-	6	753	c.707A>G	c.(706-708)GAT>GGT	p.D236G	SNRNP40_uc009vtt.2_5'Flank|SNRNP40_uc010oge.1_Missense_Mutation_p.D236G	NM_004814	NP_004805	Q96DI7	SNR40_HUMAN	WD repeat domain 57 (U5 snRNP specific)	236	WD 5.					catalytic step 2 spliceosome|cytoplasm|nucleoplasm|small nucleolar ribonucleoprotein complex|U5 snRNP	protein binding				0						AGTCACTGAATCTGCATGGCC	0.448													7	51					0	0	0.001984	0	0
RLF	6018	broad.mit.edu	37	1	40702367	40702367	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:40702367C>G	uc001cfc.3	+	8	2024	c.1993C>G	c.(1993-1995)CTG>GTG	p.L665V	RLF_uc001cfd.3_Missense_Mutation_p.L356V	NM_012421	NP_036553	Q13129	RLF_HUMAN	rearranged L-myc fusion	665					chromosome organization|DNA integration|DNA mediated transformation|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			ovary(2)|pancreas(1)	3	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;5.87e-19)|Epithelial(16;7.02e-16)|all cancers(16;1.69e-14)|Lung(16;0.0427)|LUSC - Lung squamous cell carcinoma(16;0.0461)			AGATTGCCACCTGCAAGACAG	0.418													39	88					0	0	0.014410	0	0
CYP4Z1	199974	broad.mit.edu	37	1	47533183	47533183	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:47533183G>C	uc001cqu.1	+	1	24	c.21G>C	c.(19-21)CAG>CAC	p.Q7H		NM_178134	NP_835235	Q86W10	CP4Z1_HUMAN	cytochrome P450 4Z1	7	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding			skin(1)	1						CCTGGCTTCAGGAACTCATGG	0.522													11	16					0	0	0.008291	0	0
AGL	178	broad.mit.edu	37	1	100353559	100353559	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:100353559G>A	uc001dsi.1	+	21	3107	c.2707G>A	c.(2707-2709)GAG>AAG	p.E903K	AGL_uc001dsj.1_Missense_Mutation_p.E903K|AGL_uc001dsk.1_Missense_Mutation_p.E903K|AGL_uc001dsl.1_Missense_Mutation_p.E903K|AGL_uc001dsm.1_Missense_Mutation_p.E887K|AGL_uc001dsn.1_Missense_Mutation_p.E886K	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	903	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		AACTTTGGCTGAGCTAAATCA	0.373													5	44					0	0	0.001168	0	0
SYCP1	6847	broad.mit.edu	37	1	115487052	115487052	+	Missense_Mutation	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:115487052A>G	uc001efr.2	+	24	2228	c.2019A>G	c.(2017-2019)ATA>ATG	p.I673M	SYCP1_uc010owt.1_RNA|SYCP1_uc001efq.2_Missense_Mutation_p.I673M|SYCP1_uc009wgw.2_Missense_Mutation_p.I673M	NM_003176	NP_003167	Q15431	SYCP1_HUMAN	synaptonemal complex protein 1	673	Potential.				cell division|reciprocal meiotic recombination|spermatogenesis|synaptonemal complex assembly		DNA binding			skin(1)	1	Lung SC(450;0.211)	all_cancers(81;8.65e-08)|all_epithelial(167;3.32e-07)|all_lung(203;6.55e-06)|Lung NSC(69;1.11e-05)|Acute lymphoblastic leukemia(138;0.221)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACAAAAAGATATCAGAAGAAA	0.279													4	23					0	0	0.009096	0	0
HIST2H2AB	317772	broad.mit.edu	37	1	149859423	149859423	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:149859423G>C	uc001ete.2	-	1	44	c.44C>G	c.(43-45)GCC>GGC	p.A15G	HIST2H2BE_uc001etc.2_5'Flank	NM_175065	NP_778235	Q8IUE6	H2A2B_HUMAN	histone cluster 2, H2ab	15					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)|breast(1)	2	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			GCGCGACTTGGCCTTAGCGCG	0.602													4	164					0	0	0.001168	0	0
FLG2	388698	broad.mit.edu	37	1	152323513	152323513	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:152323513C>G	uc001ezw.3	-	3	6822	c.6749G>C	c.(6748-6750)AGA>ACA	p.R2250T	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	2250							calcium ion binding|structural molecule activity			ovary(10)|skin(5)|upper_aerodigestive_tract(1)|breast(1)	17	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AGATCCCCTTCTTCCAGTTGT	0.522													14	638					0	0	0.007413	0	0
SPRR2F	6705	broad.mit.edu	37	1	153085129	153085129	+	Silent	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:153085129A>G	uc001fbi.2	-	2	140	c.81T>C	c.(79-81)TGT>TGC	p.C27C	SPRR2D_uc009wnz.2_Intron|SPRR2A_uc001fbf.2_Intron|SPRR2A_uc009woa.2_Intron	NM_001014450	NP_001014450	Q96RM1	SPR2F_HUMAN	small proline-rich protein 2F	27	3 X 9 AA tandem repeats of [PS]-K-C-P- [EQ]-[PS]-C-P-P.|1.				keratinization	cornified envelope|cytoplasm					0	Lung NSC(65;1.49e-28)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			TCGGGGGTGGACATGGCTCTG	0.607													6	333					0	0	0.001168	0	0
CD1E	913	broad.mit.edu	37	1	158325321	158325321	+	Missense_Mutation	SNP	G	A	A	rs142840776		TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:158325321G>A	uc001fse.2	+	3	826	c.587G>A	c.(586-588)GGG>GAG	p.G196E	CD1E_uc010pid.1_Missense_Mutation_p.G194E|CD1E_uc010pie.1_Missense_Mutation_p.G97E|CD1E_uc010pif.1_Intron|CD1E_uc001fsd.2_Missense_Mutation_p.G196E|CD1E_uc001fsk.2_Intron|CD1E_uc001fsj.2_Intron|CD1E_uc001fsc.2_Intron|CD1E_uc010pig.1_Intron|CD1E_uc001fsa.2_Intron|CD1E_uc001fsf.2_Missense_Mutation_p.G196E|CD1E_uc001fry.2_Missense_Mutation_p.G196E|CD1E_uc001fsg.2_Intron|CD1E_uc001fsh.2_Intron|CD1E_uc001fsi.2_Missense_Mutation_p.G196E|CD1E_uc009wsv.2_Missense_Mutation_p.G97E|CD1E_uc001frz.2_Intron|CD1E_uc009wsw.2_5'Flank	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	196	Ig-like.				antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen		p.G196E(1)		skin(3)	3	all_hematologic(112;0.0378)					TTTCTAGCGGGGCTCATGGAA	0.473													4	38					0	0	0.001984	0	0
SCYL3	57147	broad.mit.edu	37	1	169823532	169823532	+	Missense_Mutation	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:169823532A>G	uc001ggs.2	-	13	2246	c.2048T>C	c.(2047-2049)ATT>ACT	p.I683T	SCYL3_uc010plw.1_Missense_Mutation_p.I275T|SCYL3_uc001ggt.2_Missense_Mutation_p.I629T|SCYL3_uc001ggu.2_RNA	NM_181093	NP_851607	Q8IZE3	PACE1_HUMAN	SCY1-like 3 isoform 2	683	Interaction with EZR.				cell migration	Golgi apparatus|lamellipodium	ATP binding|protein binding|protein kinase activity			ovary(1)|skin(1)	2	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					AGAAGGCTTAATTTCTGGGAT	0.393													6	109					0	0	0.003080	0	0
C1orf129	80133	broad.mit.edu	37	1	170928725	170928725	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:170928725T>C	uc001ghg.2	+	5	405	c.275T>C	c.(274-276)ATT>ACT	p.I92T	C1orf129_uc009wvy.2_5'UTR|C1orf129_uc010plz.1_Missense_Mutation_p.I92T	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	92							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					TATGAGTACATTGAGGACATG	0.363													6	43					0	0	0.003080	0	0
PRG4	10216	broad.mit.edu	37	1	186276366	186276366	+	Silent	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:186276366G>A	uc001gru.3	+	7	1566	c.1515G>A	c.(1513-1515)GAG>GAA	p.E505E	PRG4_uc001grt.3_Silent_p.E464E|PRG4_uc009wyl.2_Silent_p.E412E|PRG4_uc009wym.2_Silent_p.E371E|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	505	59 X 8 AA repeats of K-X-P-X-P-T-T-X.|21.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CTCCCAAGGAGCCTGCACCCA	0.647													4	111					0	0	0.009096	0	0
FMN2	56776	broad.mit.edu	37	1	240371430	240371430	+	Silent	SNP	C	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:240371430C>A	uc010pyd.1	+	5	3543	c.3318C>A	c.(3316-3318)GGC>GGA	p.G1106G	FMN2_uc010pye.1_Silent_p.G1110G	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1106	Pro-rich.|FH1.				actin cytoskeleton organization|establishment of meiotic spindle localization|intracellular signal transduction|meiotic chromosome movement towards spindle pole|meiotic metaphase I|multicellular organismal development|oogenesis|polar body extrusion after meiotic divisions		actin binding			ovary(4)|pancreas(3)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Ovarian(103;0.127)	all_cancers(173;0.013)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)			CCGGAGTGGGCATACCTCCTC	0.731													7	249					0.000157383	0.000161368	0.003080	1	0
OR2M7	391196	broad.mit.edu	37	1	248486965	248486965	+	Missense_Mutation	SNP	C	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:248486965C>A	uc010pzk.1	-	1	906	c.906G>T	c.(904-906)ATG>ATT	p.M302I		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	302	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			CTAAGATTTTCATTAATGCTC	0.403													6	52					0.000274275	0.00027945	0.004482	1	0
MYO3A	53904	broad.mit.edu	37	10	26463288	26463288	+	Missense_Mutation	SNP	G	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr10:26463288G>T	uc001isn.2	+	30	4455	c.4095G>T	c.(4093-4095)CAG>CAT	p.Q1365H	MYO3A_uc009xkp.1_Intron|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1365	IQ 3.				protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						GAAGGCAGCAGTTGAGGAAGG	0.438													19	97					1.96292e-10	2.02544e-10	0.010504	1	0
LOC387646	387646	broad.mit.edu	37	10	27538754	27538754	+	Missense_Mutation	SNP	G	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr10:27538754G>T	uc001its.2	-	1	2482	c.639C>A	c.(637-639)GAC>GAA	p.D213E		NR_003525				SubName: Full=cDNA FLJ44924 fis, clone BRAMY3014555;												0						TAAGCCCCAGGTCCAAAGGTT	0.502													23	150					5.61819e-17	5.83427e-17	0.005443	1	0
MBL2	4153	broad.mit.edu	37	10	54531233	54531233	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr10:54531233T>C	uc001jjt.2	-	1	228	c.163A>G	c.(163-165)ACC>GCC	p.T55A		NM_000242	NP_000233	P11226	MBL2_HUMAN	soluble mannose-binding lectin precursor	55	Collagen-like.				acute-phase response|complement activation, classical pathway|complement activation, lectin pathway|defense response to Gram-positive bacterium|negative regulation of growth of symbiont in host|opsonization|response to oxidative stress	collagen|extracellular space	bacterial cell surface binding|calcium-dependent protein binding|eukaryotic cell surface binding|mannose binding|receptor binding			ovary(1)	1						TCTCCCTTGGTGCCATCACGC	0.537													10	81					0	0	0.001855	0	0
CYP2C19	1557	broad.mit.edu	37	10	96535297	96535297	+	Splice_Site	SNP	G	C	C	rs77576043		TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr10:96535297G>C	uc010qnz.1	+	3	481	c.481_splice	c.e3+1	p.A161_splice	CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_Splice_Site_p.A139_splice	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,						exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)	AAAACCAAGGGTGGGTGAACA	0.498													9	150					0	0	0.010729	0	0
CYP2C8	1558	broad.mit.edu	37	10	96824603	96824603	+	Missense_Mutation	SNP	T	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr10:96824603T>A	uc001kkb.2	-	4	691	c.596A>T	c.(595-597)AAA>ATA	p.K199I	CYP2C8_uc001kkc.2_RNA|CYP2C8_uc010qoa.1_Missense_Mutation_p.K129I|CYP2C8_uc010qob.1_Missense_Mutation_p.K113I|CYP2C8_uc010qoc.1_Missense_Mutation_p.K97I|CYP2C8_uc010qod.1_Missense_Mutation_p.K113I	NM_000770	NP_000761	P10632	CP2C8_HUMAN	cytochrome P450, family 2, subfamily C,	199					exogenous drug catabolic process|organic acid metabolic process|oxidative demethylation|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|caffeine oxidase activity|electron carrier activity|heme binding|oxygen binding				0		Colorectal(252;0.0397)		all cancers(201;6.21e-05)	Aminophenazone(DB01424)|Amiodarone(DB01118)|Amodiaquine(DB00613)|Benzphetamine(DB00865)|Carbamazepine(DB00564)|Cerivastatin(DB00439)|Diclofenac(DB00586)|Fluvastatin(DB01095)|Fosphenytoin(DB01320)|Gemfibrozil(DB01241)|Ketoconazole(DB01026)|Lapatinib(DB01259)|Lovastatin(DB00227)|Midazolam(DB00683)|Montelukast(DB00471)|Nicardipine(DB00622)|Paclitaxel(DB01229)|Phenytoin(DB00252)|Pioglitazone(DB01132)|Repaglinide(DB00912)|Rifampin(DB01045)|Rosiglitazone(DB00412)|Simvastatin(DB00641)|Sitagliptin(DB01261)|Tolbutamide(DB01124)|Torasemide(DB00214)|Tretinoin(DB00755)|Trimethoprim(DB00440)|Warfarin(DB00682)|Zafirlukast(DB00549)|Zopiclone(DB01198)	ATTGAATCTTTTCATCAGGGT	0.408													4	64					0	0	0.009096	0	0
C10orf79	80217	broad.mit.edu	37	10	105990460	105990460	+	Silent	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr10:105990460G>A	uc001kxw.2	-	2	323	c.207C>T	c.(205-207)GGC>GGT	p.G69G	C10orf79_uc001kxx.3_Silent_p.G69G|C10orf79_uc001kxy.1_Silent_p.G69G|C10orf79_uc001kxz.2_Silent_p.G69G	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	69											0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		TTGCCATGACGCCCACAATTC	0.408													4	68					0	0	0.000602	0	0
CPXM2	119587	broad.mit.edu	37	10	125557566	125557566	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr10:125557566C>T	uc001lhk.1	-	6	1140	c.815G>A	c.(814-816)CGC>CAC	p.R272H	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	272	F5/8 type C.				cell adhesion|proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2		all_lung(145;0.174)|Colorectal(57;0.178)|Glioma(114;0.222)|all_neural(114;0.226)|Lung NSC(174;0.233)		COAD - Colon adenocarcinoma(40;0.212)|Colorectal(40;0.237)		AGGGTTTATGCGGATGTAGCG	0.517													11	52					0	0	0.001855	0	0
MKI67	4288	broad.mit.edu	37	10	129923863	129923863	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr10:129923863G>C	uc001lke.2	-	2	264	c.69C>G	c.(67-69)AGC>AGG	p.S23R	MKI67_uc001lkf.2_Missense_Mutation_p.S23R|MKI67_uc009yav.1_Missense_Mutation_p.S23R|MKI67_uc009yaw.1_5'UTR	NM_002417	NP_002408	P46013	KI67_HUMAN	antigen identified by monoclonal antibody Ki-67	23					cell proliferation	nucleolus	ATP binding|protein C-terminus binding			ovary(4)|central_nervous_system(2)|skin(1)	7		all_epithelial(44;2.12e-05)|all_lung(145;0.00679)|Lung NSC(174;0.00998)|all_neural(114;0.0936)|Colorectal(57;0.14)|Breast(234;0.166)|Melanoma(40;0.203)				AGGTGCTGAGGCTCAGGGGAA	0.517													11	104					0	0	0.004990	0	0
FRG2B	441581	broad.mit.edu	37	10	135438832	135438832	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr10:135438832G>C	uc010qvg.1	-	4	661	c.608C>G	c.(607-609)ACC>AGC	p.T203S		NM_001080998	NP_001074467	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B	203						nucleus					0		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		CTGCTCACAGGTAAGTGGAGA	0.552													3	55					0	0	0.004672	0	0
DCHS1	8642	broad.mit.edu	37	11	6645159	6645159	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr11:6645159C>G	uc001mem.1	-	21	8158	c.7748G>C	c.(7747-7749)AGC>ACC	p.S2583T		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	2583	Cadherin 24.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		CACGACTGAGCTTTGGGGTGG	0.537													9	163					0	0	0.006214	0	0
DCHS1	8642	broad.mit.edu	37	11	6645181	6645181	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr11:6645181C>G	uc001mem.1	-	21	8136	c.7726G>C	c.(7726-7728)GAC>CAC	p.D2576H		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	2576	Cadherin 24.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|large_intestine(1)|pancreas(1)	5		Medulloblastoma(188;0.00263)|all_neural(188;0.026)		Epithelial(150;6.35e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TGCCCACGGTCAGCTGCAGCC	0.562													5	111					0	0	0.001984	0	0
EXPH5	23086	broad.mit.edu	37	11	108381248	108381248	+	Silent	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr11:108381248G>A	uc001pkk.2	-	6	5097	c.4986C>T	c.(4984-4986)AAC>AAT	p.N1662N	EXPH5_uc010rvy.1_Silent_p.N1474N|EXPH5_uc010rvz.1_Silent_p.N1506N|EXPH5_uc010rwa.1_Silent_p.N1586N	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	1662					intracellular protein transport		Rab GTPase binding			skin(3)|ovary(2)	5		all_cancers(61;3.99e-08)|Acute lymphoblastic leukemia(157;3.97e-05)|Melanoma(852;4.04e-05)|all_epithelial(67;0.000116)|all_hematologic(158;0.000315)|Breast(348;0.104)|all_neural(303;0.16)		Epithelial(105;8.1e-06)|BRCA - Breast invasive adenocarcinoma(274;1.22e-05)|all cancers(92;0.000129)|OV - Ovarian serous cystadenocarcinoma(223;0.11)|Colorectal(284;0.184)		CATGCTTTCCGTTCTCACTCA	0.473													7	187					0	0	0.003080	0	0
SORL1	6653	broad.mit.edu	37	11	121429381	121429381	+	Silent	SNP	G	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr11:121429381G>C	uc001pxx.2	+	20	2825	c.2745G>C	c.(2743-2745)CTG>CTC	p.L915L		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	915	Extracellular (Potential).|LDL-receptor class B 3.				cholesterol metabolic process|lipid transport|receptor-mediated endocytosis	integral to plasma membrane|low-density lipoprotein particle	low-density lipoprotein particle binding|transmembrane receptor activity			ovary(5)|breast(4)|large_intestine(2)|skin(2)|central_nervous_system(1)|pancreas(1)	15		Breast(109;0.00119)|Medulloblastoma(222;0.0429)|all_neural(223;0.113)		BRCA - Breast invasive adenocarcinoma(274;3.34e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.108)		CCTATCACCTGGTGTCTGAGG	0.532													8	200					0	0	0.004482	0	0
ITPR2	3709	broad.mit.edu	37	12	26985677	26985677	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr12:26985677T>C	uc001rhg.2	-	1	455	c.38A>G	c.(37-39)GAC>GGC	p.D13G	ITPR2_uc001rhh.1_5'UTR|ITPR2_uc001rhi.1_Missense_Mutation_p.D13G	NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	13	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					GGACACGATGTCCCCTATGTA	0.622													3	104					0	0	0.009096	0	0
C12orf40	283461	broad.mit.edu	37	12	40076514	40076514	+	Missense_Mutation	SNP	A	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr12:40076514A>C	uc001rmc.2	+	8	955	c.788A>C	c.(787-789)AAA>ACA	p.K263T	C12orf40_uc009zjv.1_RNA	NM_001031748	NP_001026918	Q86WS4	CL040_HUMAN	hypothetical protein LOC283461	263										ovary(6)	6						ATTACTGAAAAACACTCAATA	0.353													3	79					0	0	0.004672	0	0
HOXC4	3221	broad.mit.edu	37	12	54447735	54447735	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr12:54447735C>G	uc001seu.2	+	3	709	c.29C>G	c.(28-30)TCT>TGT	p.S10C	HOXC4_uc001sex.2_Missense_Mutation_p.S10C	NM_014620	NP_055435	P09017	HXC4_HUMAN	homeobox C4	10						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TTGATGGACTCTAACTACATC	0.423													10	70					0	0	0.006214	0	0
NCKAP1L	3071	broad.mit.edu	37	12	54917243	54917243	+	Silent	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr12:54917243G>A	uc001sgc.3	+	19	2023	c.1944G>A	c.(1942-1944)AGG>AGA	p.R648R	NCKAP1L_uc010sox.1_Silent_p.R190R|NCKAP1L_uc010soy.1_Silent_p.R598R	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	648					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						GGAAGCAGAGGCAGACTCCCA	0.522													6	96					0	0	0.001168	0	0
RNF6	6049	broad.mit.edu	37	13	26788671	26788671	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr13:26788671G>A	uc001uqo.2	-	5	1639	c.1348C>T	c.(1348-1350)CGG>TGG	p.R450W	RNF6_uc001uqn.1_Intron|RNF6_uc010aak.2_Missense_Mutation_p.R450W|RNF6_uc001uqp.2_Missense_Mutation_p.R450W|RNF6_uc001uqq.2_Missense_Mutation_p.R450W|RNF6_uc010tdk.1_Missense_Mutation_p.R94W	NM_183044	NP_898865	Q9Y252	RNF6_HUMAN	ring finger protein 6	450					negative regulation of axon extension|positive regulation of transcription, DNA-dependent|protein K27-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|regulation of androgen receptor signaling pathway|ubiquitin-dependent protein catabolic process	axon|cytoplasm|PML body	androgen receptor binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2	Colorectal(5;0.000442)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.00893)|Epithelial(112;0.0481)|OV - Ovarian serous cystadenocarcinoma(117;0.148)|GBM - Glioblastoma multiforme(144;0.23)|Lung(94;0.245)		ATACCTGACCGCTCTAAACGA	0.438													3	68					0	0	0.009096	0	0
LOC220429	220429	broad.mit.edu	37	13	50466990	50466990	+	Missense_Mutation	SNP	T	C	C	rs144184696	by1000genomes	TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr13:50466990T>C	uc001vdk.2	+	1	2446	c.2264T>C	c.(2263-2265)CTG>CCG	p.L755P		NR_003268				Homo sapiens CTAGE family, member 5 pseudogene, mRNA (cDNA clone IMAGE:5270026).												0						GTCTGTCCACTGAGGGGTTTT	0.517													5	72					0	0	0.001168	0	0
CUL4A	8451	broad.mit.edu	37	13	113891149	113891149	+	Silent	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr13:113891149T>C	uc010tjy.1	+	10	872	c.861T>C	c.(859-861)ATT>ATC	p.I287I	CUL4A_uc010tjx.1_Silent_p.I187I|CUL4A_uc010agu.2_Silent_p.I148I|CUL4A_uc010tjz.1_5'UTR	NM_001008895	NP_001008895	Q13619	CUL4A_HUMAN	cullin 4A isoform 1	287					cell cycle arrest|DNA repair|G1/S transition of mitotic cell cycle|induction of apoptosis by intracellular signals|interspecies interaction between organisms|negative regulation of cell proliferation|ubiquitin-dependent protein catabolic process	Cul4A-RING ubiquitin ligase complex	ubiquitin protein ligase binding			central_nervous_system(2)|skin(1)	3	Lung NSC(43;0.0161)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0482)|all_epithelial(44;0.0148)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.112)			AACCACTGATTGCTTGTGTGG	0.358													3	56					0	0	0.000602	0	0
SUPT16H	11198	broad.mit.edu	37	14	21838616	21838616	+	Missense_Mutation	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr14:21838616A>G	uc001wao.2	-	4	701	c.362T>C	c.(361-363)ATG>ACG	p.M121T		NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation	121					DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		GGCTTCAATCATTTTGTCAAA	0.383													4	53					0	0	0.000602	0	0
CHD8	57680	broad.mit.edu	37	14	21861840	21861840	+	Silent	SNP	T	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr14:21861840T>G	uc001was.1	-	32	5371	c.5277A>C	c.(5275-5277)CCA>CCC	p.P1759P	CHD8_uc001war.1_Silent_p.P1655P|SNORD9_uc001wat.1_5'Flank	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	2038					ATP-dependent chromatin remodeling|canonical Wnt receptor signaling pathway|negative regulation of transcription, DNA-dependent|negative regulation of Wnt receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	MLL1 complex	ATP binding|beta-catenin binding|DNA binding|DNA helicase activity|DNA-dependent ATPase activity|methylated histone residue binding|p53 binding			ovary(6)|upper_aerodigestive_tract(1)|large_intestine(1)|breast(1)|skin(1)	10	all_cancers(95;0.00121)		Epithelial(56;2.55e-06)|all cancers(55;1.73e-05)	GBM - Glioblastoma multiforme(265;0.00424)		CATAGTCTTGTGGGGTTGGTC	0.547													5	51					0	0	0.000602	0	0
TRIM9	114088	broad.mit.edu	37	14	51446210	51446210	+	Silent	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr14:51446210T>C	uc001wyx.3	-	9	2730	c.1965A>G	c.(1963-1965)AGA>AGG	p.R655R	TRIM9_uc001wyy.2_Silent_p.R736R	NM_015163	NP_055978	Q9C026	TRIM9_HUMAN	tripartite motif protein 9 isoform 1	655	B30.2/SPRY.				proteasomal ubiquitin-dependent protein catabolic process	cell junction|cytoskeleton|dendrite|synaptic vesicle	protein homodimerization activity|ubiquitin-protein ligase activity|zinc ion binding			skin(2)|lung(1)	3	all_epithelial(31;0.00418)|Breast(41;0.148)					TCAAGTTTTTTCTATTTAAGT	0.453													11	186					0	0	0.002450	0	0
PCNX	22990	broad.mit.edu	37	14	71492954	71492954	+	Missense_Mutation	SNP	A	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr14:71492954A>C	uc001xmo.2	+	14	3750	c.3304A>C	c.(3304-3306)ATA>CTA	p.I1102L	PCNX_uc010are.1_Missense_Mutation_p.I991L|PCNX_uc010arf.1_5'UTR	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1102						integral to membrane				ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(12;0.206)	all cancers(60;0.00835)|BRCA - Breast invasive adenocarcinoma(234;0.00951)|OV - Ovarian serous cystadenocarcinoma(108;0.0417)		ATTATATGGAATAACTTTCAC	0.338													3	23					0	0	0.004672	0	0
ADAM6	8755	broad.mit.edu	37	14	107095585	107095585	+	RNA	SNP	C	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr14:107095585C>G	uc010tyt.1	-	100		c.4583G>C								Parts of antibodies, mostly variable regions.												0						AGGTCCAGGACTCTCAGAAAG	0.507													4	15					0	0	0.000602	0	0
C15orf2	23742	broad.mit.edu	37	15	24923452	24923452	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr15:24923452C>T	uc001ywo.2	+	1	2912	c.2438C>T	c.(2437-2439)GCA>GTA	p.A813V		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	813					cell differentiation|multicellular organismal development|spermatogenesis					ovary(2)|large_intestine(2)|skin(2)|kidney(1)|central_nervous_system(1)	8		all_cancers(20;2.14e-21)|all_epithelial(15;4.77e-19)|Lung NSC(15;1.43e-14)|all_lung(15;9.57e-14)|Breast(32;0.00086)		all cancers(64;3.19e-24)|Epithelial(43;2.67e-17)|GBM - Glioblastoma multiforme(186;7.36e-07)|BRCA - Breast invasive adenocarcinoma(123;0.000273)|Lung(196;0.229)		GCCTCTGCAGCATCGTTATCC	0.522													5	160					0	0	0.001984	0	0
GATM	2628	broad.mit.edu	37	15	45658331	45658331	+	Silent	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr15:45658331T>C	uc001zvc.2	-	6	1220	c.891A>G	c.(889-891)AAA>AAG	p.K297K	GATM_uc001zvb.2_Silent_p.K168K|GATM_uc010uev.1_Silent_p.K350K	NM_001482	NP_001473	P50440	GATM_HUMAN	L-arginine:glycine amidinotransferase precursor	297					creatine biosynthetic process	mitochondrial inner membrane|mitochondrial intermembrane space	glycine amidinotransferase activity|protein binding				0		all_cancers(109;1.25e-09)|all_epithelial(112;5.56e-08)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;4.87e-16)|GBM - Glioblastoma multiforme(94;1.97e-06)	Creatine(DB00148)|Glycine(DB00145)|L-Ornithine(DB00129)	GATTGGGATCTTTAAAGGAGA	0.428													21	59					0	0	0.014323	0	0
SEMA6D	80031	broad.mit.edu	37	15	48052514	48052514	+	Nonsense_Mutation	SNP	T	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr15:48052514T>A	uc010bek.2	+	3	483	c.123T>A	c.(121-123)TAT>TAA	p.Y41*	SEMA6D_uc001zvw.2_Nonsense_Mutation_p.Y41*|SEMA6D_uc001zvx.1_Nonsense_Mutation_p.Y41*|SEMA6D_uc001zvy.2_Nonsense_Mutation_p.Y41*|SEMA6D_uc001zvz.2_Nonsense_Mutation_p.Y41*|SEMA6D_uc001zwa.2_Nonsense_Mutation_p.Y41*|SEMA6D_uc001zwb.2_Nonsense_Mutation_p.Y41*|SEMA6D_uc001zwc.2_Nonsense_Mutation_p.Y41*	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	41	Sema.|Extracellular (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		CAAGGCAATATCCGGTTTTTA	0.418													3	53					0	0	0.009096	0	0
ALDH1A2	8854	broad.mit.edu	37	15	58254315	58254315	+	Silent	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr15:58254315G>A	uc002aex.2	-	10	1204	c.1146C>T	c.(1144-1146)GGC>GGT	p.G382G	ALDH1A2_uc002aey.2_Silent_p.G344G|ALDH1A2_uc010ugv.1_Silent_p.G361G|ALDH1A2_uc010ugw.1_Silent_p.G353G|ALDH1A2_uc002aew.2_Silent_p.G286G	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	382					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	CCAGCTTGGCGCCCTCAGCCA	0.473													4	91					0	0	0.009096	0	0
RASGRF1	5923	broad.mit.edu	37	15	79296193	79296193	+	Silent	SNP	G	A	A	rs111385391	byFrequency	TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr15:79296193G>A	uc002beq.2	-	16	2823	c.2448C>T	c.(2446-2448)GGC>GGT	p.G816G	RASGRF1_uc002bep.2_Silent_p.G800G|RASGRF1_uc010blm.1_Silent_p.G725G|RASGRF1_uc002ber.3_Silent_p.G800G|RASGRF1_uc010unh.1_Silent_p.G211G|RASGRF1_uc002beo.2_Silent_p.G32G	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	818					activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						GGGTCGTATCGCCCTCATCTG	0.612													5	62					0	0	0.000602	0	0
PDE8A	5151	broad.mit.edu	37	15	85619979	85619979	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr15:85619979G>C	uc002blh.2	+	5	696	c.507G>C	c.(505-507)GAG>GAC	p.E169D	PDE8A_uc002bli.2_Missense_Mutation_p.E169D|PDE8A_uc010bnc.2_5'UTR|PDE8A_uc010bnd.2_5'UTR|PDE8A_uc002blj.2_5'UTR|PDE8A_uc002blk.2_5'UTR	NM_002605	NP_002596	O60658	PDE8A_HUMAN	phosphodiesterase 8A isoform 1	169					cyclic nucleotide metabolic process|regulation of transcription, DNA-dependent	cytosol	3',5'-cyclic-AMP phosphodiesterase activity|metal ion binding|two-component response regulator activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(223;0.227)		BRCA - Breast invasive adenocarcinoma(143;0.0608)			ATAGAGAAGAGTTGTCCGTAA	0.294													10	107					0	0	0.001855	0	0
TNFRSF12A	51330	broad.mit.edu	37	16	3071291	3071291	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr16:3071291C>T	uc002csv.3	+	2	256	c.170C>T	c.(169-171)GCG>GTG	p.A57V	TNFRSF12A_uc002csw.3_Intron|THOC6_uc002ctb.2_5'Flank|THOC6_uc002ctd.2_5'Flank|THOC6_uc002ctc.2_5'Flank|THOC6_uc002cta.2_5'Flank	NM_016639	NP_057723	Q9NP84	TNR12_HUMAN	tumor necrosis factor receptor superfamily,	57	Extracellular (Potential).|TNFR-Cys; atypical.				angiogenesis|apoptosis	integral to membrane	receptor activity				0						TCTTGCAGGGCGCGACCGCAC	0.731													5	31					0	0	0.001168	0	0
ATXN2L	11273	broad.mit.edu	37	16	28846954	28846954	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr16:28846954C>G	uc002drc.2	+	21	2938	c.2770C>G	c.(2770-2772)CCC>GCC	p.P924A	uc010vct.1_Intron|ATXN2L_uc002drb.2_Missense_Mutation_p.P924A|ATXN2L_uc002dqy.2_Missense_Mutation_p.P924A|ATXN2L_uc002dra.2_Missense_Mutation_p.P924A|ATXN2L_uc002dqz.2_Missense_Mutation_p.P924A|ATXN2L_uc010vdb.1_Missense_Mutation_p.P930A|ATXN2L_uc002dre.2_Missense_Mutation_p.P924A|ATXN2L_uc002drf.2_Missense_Mutation_p.P333A|ATXN2L_uc002drg.2_Missense_Mutation_p.P207A	NM_007245	NP_009176	Q8WWM7	ATX2L_HUMAN	ataxin 2 related protein isoform A	924						membrane				upper_aerodigestive_tract(1)|ovary(1)	2						AGGCACGCCGCCCTCTCTGCC	0.677													5	61					0	0	0.000602	0	0
ITGAM	3684	broad.mit.edu	37	16	31308840	31308840	+	Silent	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr16:31308840C>T	uc002ebq.2	+	13	1460	c.1362C>T	c.(1360-1362)GGC>GGT	p.G454G	ITGAM_uc002ebr.2_Silent_p.G454G|ITGAM_uc010cam.1_Missense_Mutation_p.R58C|ITGAM_uc010can.2_5'UTR	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	454	FG-GAP 5.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						TTCAGATCGGCGCCTACTTCG	0.582													6	228					0	0	0.003080	0	0
ZFHX3	463	broad.mit.edu	37	16	72827240	72827240	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr16:72827240G>C	uc002fck.2	-	9	10014	c.9341C>G	c.(9340-9342)GCA>GGA	p.A3114G	ZFHX3_uc002fcl.2_Missense_Mutation_p.A2200G	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3114					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			ovary(2)|skin(2)	4		Ovarian(137;0.13)				CGCTGGATATGCTGTAGGAAG	0.562													3	232					0	0	0.004672	0	0
TP53	7157	broad.mit.edu	37	17	7578394	7578394	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr17:7578394T>C	uc002gim.2	-	5	730	c.536A>G	c.(535-537)CAT>CGT	p.H179R	TP53_uc002gig.1_Missense_Mutation_p.H179R|TP53_uc002gih.2_Missense_Mutation_p.H179R|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H47R|TP53_uc010cng.1_Missense_Mutation_p.H47R|TP53_uc002gii.1_Missense_Mutation_p.H47R|TP53_uc010cnh.1_Missense_Mutation_p.H179R|TP53_uc010cni.1_Missense_Mutation_p.H179R|TP53_uc002gij.2_Missense_Mutation_p.H179R|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.H86R|TP53_uc002gio.2_Missense_Mutation_p.H47R|TP53_uc010vug.1_Missense_Mutation_p.H140R	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	179	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).	Zinc.	H -> Q (in sporadic cancers; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|H -> R (in sporadic cancers; somatic mutation).|HH -> QS (in a sporadic cancer; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> D (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> Y (in LFS; germline mutation and 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|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|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 regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.H179R(99)|p.H179Y(74)|p.H179L(31)|p.H179Q(17)|p.H179N(13)|p.H179D(10)|p.P177_C182delPHHERC(8)|p.0?(7)|p.C176_R181delCPHHER(3)|p.R174fs*24(3)|p.H179P(3)|p.R175_E180delRCPHHE(3)|p.H179fs*68(2)|p.H179H(2)|p.P177fs*3(2)|p.V173fs*59(2)|p.R174fs*1(2)|p.K164_P219del(1)|p.C176fs*65(1)|p.P177_H179delPHH(1)|p.V173fs*23(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.H179del(1)|p.E171_H179delEVVRRCPHH(1)|p.R81fs*24(1)|p.R174_E180>K(1)|p.H178fs*6(1)|p.P177_E180delPHHE(1)|p.R42fs*24(1)|p.E171fs*1(1)|p.R174fs*3(1)|p.H178_H179>QY(1)|p.E171fs*61(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		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)		GCAGCGCTCATGGTGGGGGCA	0.642		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	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_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)			52	37					0	0	0.014410	0	0
ALDH3A1	218	broad.mit.edu	37	17	19646621	19646621	+	Silent	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr17:19646621G>A	uc010cqu.2	-	2	648	c.318C>T	c.(316-318)GGC>GGT	p.G106G	ALDH3A1_uc010vzd.1_Silent_p.G106G|ALDH3A1_uc002gwj.2_Silent_p.G106G|ALDH3A1_uc010cqv.2_Silent_p.G106G|ALDH3A1_uc002gwk.2_Missense_Mutation_p.A23V|ALDH3A1_uc002gwl.1_Silent_p.G33G	NM_001135168	NP_001128640	P30838	AL3A1_HUMAN	aldehyde dehydrogenase 3A1	106					cellular aldehyde metabolic process	cytosol|endoplasmic reticulum	alcohol dehydrogenase (NADP+) activity|aldehyde dehydrogenase (NAD) activity|aldehyde dehydrogenase			ovary(1)|pancreas(1)	2	all_cancers(12;4.01e-05)|all_epithelial(12;0.00301)|Breast(13;0.186)			Colorectal(15;0.0829)	NADH(DB00157)	CGAGGACCACGCCCAGTGGCT	0.627													4	80					0	0	0.000602	0	0
CPD	1362	broad.mit.edu	37	17	28706125	28706125	+	Missense_Mutation	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr17:28706125A>G	uc002hfb.1	+	1	142	c.127A>G	c.(127-129)ACT>GCT	p.T43A	CPD_uc010wbo.1_5'Flank|CPD_uc010wbp.1_5'Flank	NM_001304	NP_001295	O75976	CBPD_HUMAN	carboxypeptidase D precursor	43	Extracellular (Potential).|Carboxypeptidase-like 1.				proteolysis	integral to membrane	metallocarboxypeptidase activity|serine-type carboxypeptidase activity|zinc ion binding			liver(1)|skin(1)	2						GACTACCACAACTACGAGCGC	0.622													2	2					0	0	0.004672	0	0
ZNF207	7756	broad.mit.edu	37	17	30696691	30696691	+	Silent	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr17:30696691G>A	uc002hhh.3	+	11	1498	c.1350G>A	c.(1348-1350)CCG>CCA	p.P450P	ZNF207_uc002hhj.3_Silent_p.P466P|ZNF207_uc002hhi.3_Silent_p.P435P|ZNF207_uc010csz.2_Silent_p.P469P|ZNF207_uc002hhk.1_Silent_p.P466P|ZNF207_uc002hhl.1_RNA	NM_003457	NP_003448	O43670	ZN207_HUMAN	zinc finger protein 207 isoform a	450						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)			GGCAGGGACCGCCAATGGTGC	0.527													7	57					0	0	0.001984	0	0
CCR7	1236	broad.mit.edu	37	17	38715155	38715155	+	Missense_Mutation	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr17:38715155A>G	uc002huw.2	-	2	113	c.50T>C	c.(49-51)GTC>GCC	p.V17A		NM_001838	NP_001829	P32248	CCR7_HUMAN	chemokine (C-C motif) receptor 7 precursor	17					cell maturation|immunological synapse formation|inflammatory response|interleukin-12 secretion|lymphocyte migration into lymph node|positive regulation of dendritic cell antigen processing and presentation|positive regulation of glycoprotein biosynthetic process|positive regulation of humoral immune response|positive regulation of hypersensitivity|positive regulation of interleukin-12 production|positive regulation of neutrophil chemotaxis|regulation of interferon-gamma production|regulation of interleukin-1 beta secretion|T cell costimulation	integral to membrane|intracellular	C-C chemokine receptor activity|chemokine (C-C motif) ligand 19 binding|chemokine (C-C motif) ligand 21 binding			breast(1)	1		Breast(137;0.000496)				CTGGAAAATGACAAGGAGAGC	0.498													4	48					0	0	0.001984	0	0
KRT33A	3883	broad.mit.edu	37	17	39503321	39503321	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr17:39503321C>T	uc002hwk.1	-	4	779	c.742G>A	c.(742-744)GCC>ACC	p.A248T		NM_004138	NP_004129	O76009	KT33A_HUMAN	keratin 33A	248	Coil 2.|Rod.					intermediate filament	protein binding|structural molecule activity				0		Breast(137;0.000496)				ACCTGCGTGGCGAACCATTGC	0.622													5	58					0	0	0.003080	0	0
KRT17	3872	broad.mit.edu	37	17	39779208	39779208	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr17:39779208C>T	uc002hxh.2	-	2	630	c.509G>A	c.(508-510)CGC>CAC	p.R170H	JUP_uc010wfs.1_Intron|KRT17_uc010wft.1_Missense_Mutation_p.R170H	NM_000422	NP_000413	Q04695	K1C17_HUMAN	keratin 17	170	Coil 1B.|Rod.				epidermis development	cytoplasm|intermediate filament	protein binding|structural constituent of cytoskeleton			ovary(1)|skin(1)	2		Breast(137;0.000307)				TCACTTGGTGCGGAAGTCATC	0.587									Steatocystoma_Multiplex				7	163					0	0	0.003080	0	0
PHB	5245	broad.mit.edu	37	17	47486775	47486775	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr17:47486775G>A	uc002iox.1	-	4	384	c.311C>T	c.(310-312)CCT>CTT	p.P104L		NM_002634	NP_002625	P35232	PHB_HUMAN	prohibitin	104					cellular response to interleukin-6|DNA replication|glucocorticoid receptor signaling pathway|histone deacetylation|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of transcription by competitive promoter binding|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|progesterone receptor signaling pathway|regulation of apoptosis	integral to plasma membrane|mitochondrial inner membrane|nucleoplasm	histone deacetylase binding|transcription regulatory region DNA binding				0	all_cancers(4;2.62e-14)|Breast(4;4.21e-29)|all_epithelial(4;6.9e-18)		Epithelial(5;8.1e-06)|all cancers(6;7.71e-05)			GAAGATGCGAGGAAGCTGGCT	0.512													3	137					0	0	0.000602	0	0
C17orf47	284083	broad.mit.edu	37	17	56620229	56620229	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr17:56620229C>T	uc002iwq.1	-	1	1455	c.1319G>A	c.(1318-1320)AGC>AAC	p.S440N	SEPT4_uc010wnx.1_5'Flank|SEPT4_uc010wny.1_5'Flank	NM_001038704	NP_001033793	Q8NEP4	CQ047_HUMAN	hypothetical protein LOC284083	440										breast(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGTCAGCTGGCTTTGGGGTGT	0.507													43	72					0	0	0.014410	0	0
ABCA6	23460	broad.mit.edu	37	17	67080574	67080574	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr17:67080574T>C	uc002jhw.1	-	33	4434	c.4259A>G	c.(4258-4260)AAG>AGG	p.K1420R		NM_080284	NP_525023	Q8N139	ABCA6_HUMAN	ATP-binding cassette, sub-family A, member 6	1420	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			upper_aerodigestive_tract(2)|large_intestine(2)|ovary(2)|skin(1)	7	Breast(10;5.65e-12)					CGCACGTACCTTTCTCGTGAT	0.453													126	286					0	0	0.014410	0	0
SLC26A11	284129	broad.mit.edu	37	17	78199637	78199637	+	Missense_Mutation	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr17:78199637A>G	uc002jyb.1	+	6	784	c.515A>G	c.(514-516)AAC>AGC	p.N172S	SLC26A11_uc002jyc.1_Missense_Mutation_p.N172S|SLC26A11_uc002jyd.1_Missense_Mutation_p.N172S|SLC26A11_uc010dhv.1_Missense_Mutation_p.N172S	NM_173626	NP_775897	Q86WA9	S2611_HUMAN	solute carrier family 26, member 11	172	Cytoplasmic (Potential).					endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosomal membrane|plasma membrane	anion:anion antiporter activity|secondary active sulfate transmembrane transporter activity				0	all_neural(118;0.0538)		OV - Ovarian serous cystadenocarcinoma(97;0.0344)|BRCA - Breast invasive adenocarcinoma(99;0.0908)			TTTGGACAGAACCTGCTGGGA	0.587													19	135					0	0	0.003330	0	0
ASXL3	80816	broad.mit.edu	37	18	31325552	31325552	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr18:31325552G>C	uc010dmg.1	+	12	5795	c.5740G>C	c.(5740-5742)GAC>CAC	p.D1914H	ASXL3_uc002kxq.2_Missense_Mutation_p.D1621H	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1914					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						ATTTCATGTTGACAAGAATGG	0.532													4	105					0	0	0.001984	0	0
MC4R	4160	broad.mit.edu	37	18	58038877	58038877	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr18:58038877G>A	uc002lie.1	-	1	1125	c.706C>T	c.(706-708)CGC>TGC	p.R236C		NM_005912	NP_005903	P32245	MC4R_HUMAN	melanocortin 4 receptor	236	Cytoplasmic (Potential).				feeding behavior|G-protein signaling, coupled to cAMP nucleotide second messenger|positive regulation of bone resorption|positive regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	melanocyte-stimulating hormone receptor activity|neuropeptide binding|ubiquitin protein ligase binding			lung(1)	1		Colorectal(73;0.0946)				GCACCTTGGCGGATGGCACCA	0.517													11	48					0	0	0.001855	0	0
KRI1	65095	broad.mit.edu	37	19	10671046	10671046	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr19:10671046G>A	uc002moy.1	-	9	769	c.760C>T	c.(760-762)CGC>TGC	p.R254C	KRI1_uc002mow.1_Translation_Start_Site|KRI1_uc002mox.1_Missense_Mutation_p.R250C	NM_023008	NP_075384	Q8N9T8	KRI1_HUMAN	KRI1 homolog	254	Glu-rich.									ovary(1)	1			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			tcctcATAGCGTTTGTTGAGG	0.413													6	50					0	0	0.003080	0	0
CYP4F22	126410	broad.mit.edu	37	19	15651449	15651449	+	Missense_Mutation	SNP	G	A	A	rs146265982		TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr19:15651449G>A	uc002nbh.3	+	8	1027	c.860G>A	c.(859-861)CGT>CAT	p.R287H		NM_173483	NP_775754	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F,	287						endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|monooxygenase activity|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen			ovary(1)|pancreas(1)	2						CGGGCACTGCGTCAGCAGGGG	0.632													21	66					0	0	0.002780	0	0
ISYNA1	51477	broad.mit.edu	37	19	18545911	18545911	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr19:18545911G>A	uc002njd.1	-	11	1539	c.1489C>T	c.(1489-1491)CCG>TCG	p.P497S	ISYNA1_uc002nja.1_Missense_Mutation_p.P369S|ISYNA1_uc002njb.1_Missense_Mutation_p.P415S|ISYNA1_uc002njc.1_Missense_Mutation_p.P347S|ISYNA1_uc010xqh.1_Missense_Mutation_p.P295S|ISYNA1_uc002nje.1_Missense_Mutation_p.P443S|ISYNA1_uc002njf.1_Missense_Mutation_p.P347S	NM_016368	NP_057452	Q9NPH2	INO1_HUMAN	inositol-3-phosphate synthase 1	497					inositol biosynthetic process|phospholipid biosynthetic process	cytoplasm	binding|inositol-3-phosphate synthase activity			ovary(1)|pancreas(1)	2						TTCTGTGGCGGGAGCCCCACG	0.627													3	57					0	0	0.004672	0	0
ZNF599	148103	broad.mit.edu	37	19	35250972	35250972	+	Missense_Mutation	SNP	T	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr19:35250972T>G	uc010edn.1	-	4	1122	c.734A>C	c.(733-735)CAT>CCT	p.H245P	ZNF599_uc010edm.1_Missense_Mutation_p.H208P	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	245	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(56;1.13e-07)|Lung NSC(56;1.81e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.138)			AAGCCTCATATGTCGAATGAC	0.488													3	92					0	0	0.004672	0	0
NPHS1	4868	broad.mit.edu	37	19	36340183	36340183	+	Silent	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr19:36340183G>A	uc002oby.2	-	7	795	c.795C>T	c.(793-795)TGC>TGT	p.C265C		NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor	265	Ig-like C2-type 3.|Extracellular (Potential).		C -> R (in NPHS1).		cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CTCGGGCCACGCACGGCAGCT	0.657													13	31					0	0	0.002450	0	0
SIPA1L3	23094	broad.mit.edu	37	19	38643516	38643516	+	Silent	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr19:38643516T>C	uc002ohk.2	+	13	4079	c.3570T>C	c.(3568-3570)GAT>GAC	p.D1190D		NM_015073	NP_055888	O60292	SI1L3_HUMAN	signal-induced proliferation-associated 1 like	1190					regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(1)|central_nervous_system(1)	2			Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)			TATCTCTTGATCCCCACTTCA	0.617													39	149					0	0	0.014410	0	0
PSG6	5675	broad.mit.edu	37	19	43411958	43411958	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr19:43411958T>C	uc002ovj.1	-	4	807	c.755A>G	c.(754-756)GAG>GGG	p.E252G	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Missense_Mutation_p.E259G|PSG6_uc002ovi.2_Missense_Mutation_p.E253G|PSG6_uc010xwk.1_Missense_Mutation_p.E92G|PSG11_uc002ovk.1_Intron|PSG6_uc002ove.1_Missense_Mutation_p.E42G|PSG6_uc002ovf.1_Intron|PSG6_uc002ovg.1_Missense_Mutation_p.E252G	NM_002782	NP_002773	Q00889	PSG6_HUMAN	pregnancy specific beta-1-glycoprotein 6 isoform	252	Ig-like C2-type 2.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				ATCCTTCTTCTCCCTGGGGTT	0.502													5	219					0	0	0.001984	0	0
PSG6	5675	broad.mit.edu	37	19	43414761	43414761	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr19:43414761C>T	uc002ovj.1	-	3	729	c.677G>A	c.(676-678)CGC>CAC	p.R226H	PSG3_uc002ouf.2_Intron|PSG11_uc002ouw.2_Intron|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG10_uc002ouv.1_Intron|PSG6_uc002ovh.1_Missense_Mutation_p.R233H|PSG6_uc002ovi.2_Missense_Mutation_p.R227H|PSG6_uc010xwk.1_Intron|PSG11_uc002ovk.1_Intron|PSG6_uc002ove.1_5'UTR|PSG6_uc002ovf.1_Missense_Mutation_p.R226H|PSG6_uc002ovg.1_Missense_Mutation_p.R226H	NM_002782	NP_002773	Q00889	PSG6_HUMAN	pregnancy specific beta-1-glycoprotein 6 isoform	226	Ig-like C2-type 1.				female pregnancy	extracellular region				ovary(1)|skin(1)	2		Prostate(69;0.00899)				TGGGTCACTGCGGCTGGCACT	0.522													19	286					0	0	0.002780	0	0
PTPRH	5794	broad.mit.edu	37	19	55708772	55708772	+	Missense_Mutation	SNP	A	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr19:55708772A>C	uc002qjq.2	-	9	1776	c.1703T>G	c.(1702-1704)GTC>GGC	p.V568G	PTPRH_uc010esv.2_Missense_Mutation_p.V390G|PTPRH_uc002qjs.2_Missense_Mutation_p.V575G	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	568	Extracellular (Potential).|Fibronectin type-III 7.				apoptosis	cytoplasm|integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)		GAGATCTGTGACCTCATTGGG	0.552													3	77					0	0	0.004672	0	0
ZNF17	7565	broad.mit.edu	37	19	57932608	57932608	+	Missense_Mutation	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr19:57932608A>G	uc002qoo.1	+	3	1979	c.1748A>G	c.(1747-1749)AAA>AGA	p.K583R	ZNF547_uc002qpm.3_Intron|ZNF17_uc002qop.1_Missense_Mutation_p.K585R	NM_006959	NP_008890	P17021	ZNF17_HUMAN	zinc finger protein 17	583	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.0234)|GBM - Glioblastoma multiforme(193;0.000426)|Lung(386;0.176)		AGAACTTACAAATGCAGCAAA	0.428													9	31					0	0	0.010729	0	0
ANTXR1	84168	broad.mit.edu	37	2	69297779	69297779	+	Silent	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr2:69297779A>G	uc002sfg.2	+	4	653	c.297A>G	c.(295-297)AGA>AGG	p.R99R	ANTXR1_uc002sfe.2_Silent_p.R99R|ANTXR1_uc002sff.2_Silent_p.R99R|ANTXR1_uc002sfd.2_Silent_p.R99R	NM_032208	NP_115584	Q9H6X2	ANTR1_HUMAN	anthrax toxin receptor 1 isoform 1 precursor	99	Extracellular (Potential).|VWFA.				actin cytoskeleton reorganization|substrate adhesion-dependent cell spreading	filopodium membrane|integral to membrane|lamellipodium membrane	actin filament binding|collagen binding|metal ion binding|protein binding|transmembrane receptor activity			ovary(2)|skin(2)	4						TGGATTTCAGAGAACAAATCC	0.378									Familial_Infantile_Hemangioma				3	63					0	0	0.009096	0	0
MXD1	4084	broad.mit.edu	37	2	70164431	70164431	+	Missense_Mutation	SNP	A	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr2:70164431A>T	uc002sfy.2	+	5	643	c.383A>T	c.(382-384)CAC>CTC	p.H128L	MXD1_uc010yqp.1_Missense_Mutation_p.H128L|MXD1_uc010yqq.1_Missense_Mutation_p.H65L|MXD1_uc010yqr.1_RNA|MXD1_uc010yqs.1_Missense_Mutation_p.H118L	NM_002357	NP_002348	Q05195	MAD1_HUMAN	MAX dimerization protein 1	128					cell proliferation|multicellular organismal development	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0						GAGCAGCGACACCTGAAGAGG	0.577													5	113					0	0	0.000602	0	0
EIF2AK3	9451	broad.mit.edu	37	2	88913303	88913303	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr2:88913303T>C	uc002stc.3	-	2	579	c.377A>G	c.(376-378)AAG>AGG	p.K126R		NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha	126	Lumenal (Potential).				activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						ATCCCACTGCTTTTTACCATG	0.353													10	95					0	0	0.008291	0	0
PTPN4	5775	broad.mit.edu	37	2	120709680	120709680	+	Silent	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr2:120709680A>G	uc002tmf.1	+	19	2559	c.1788A>G	c.(1786-1788)GAA>GAG	p.E596E	PTPN4_uc010flj.1_Silent_p.E309E|PTPN4_uc010yyr.1_Silent_p.E229E	NM_002830	NP_002821	P29074	PTN4_HUMAN	protein tyrosine phosphatase, non-receptor type	596						cytoplasm|cytoskeleton|internal side of plasma membrane	cytoskeletal protein binding|non-membrane spanning protein tyrosine phosphatase activity			ovary(2)	2					Alendronate(DB00630)	ATTCTGGGGAACTCATGCTTC	0.333													6	99					0	0	0.003080	0	0
TTN	7273	broad.mit.edu	37	2	179431332	179431332	+	Silent	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr2:179431332A>G	uc010zfg.1	-	275	72047	c.71823T>C	c.(71821-71823)GGT>GGC	p.G23941G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.G17636G|TTN_uc010zfi.1_Silent_p.G17569G|TTN_uc010zfj.1_Silent_p.G17444G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	24868							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			AGATGGGTTTACCCCAGGCAA	0.433													4	191					0	0	0.009096	0	0
TTN	7273	broad.mit.edu	37	2	179463964	179463964	+	Silent	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr2:179463964G>A	uc010zfg.1	-	239	49076	c.48852C>T	c.(48850-48852)GGC>GGT	p.G16284G	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.G9979G|TTN_uc010zfi.1_Silent_p.G9912G|TTN_uc010zfj.1_Silent_p.G9787G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17211							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			CATATTCATGGCCTTCTAGCA	0.428													26	118					0	0	0.007291	0	0
TMEFF2	23671	broad.mit.edu	37	2	192818453	192818453	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr2:192818453C>G	uc002utc.2	-	9	1374	c.980G>C	c.(979-981)GGA>GCA	p.G327A		NM_016192	NP_057276	Q9UIK5	TEFF2_HUMAN	transmembrane protein with EGF-like and two	327	Helical; (Potential).					extracellular region|integral to membrane				lung(2)|pancreas(1)|breast(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.0835)			CTGAATTGTTCCAATCACAGC	0.428													3	66					0	0	0.009096	0	0
IDH1	3417	broad.mit.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	T	T	rs121913500		TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr2:209113112C>T	uc002vcs.2	-	4	641	c.395G>A	c.(394-396)CGT>CAT	p.R132H	IDH1_uc002vct.2_Missense_Mutation_p.R132H|IDH1_uc002vcu.2_Missense_Mutation_p.R132H	NM_005896	NP_005887	O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	132		Substrate.	R -> G (in a glioma sample; glioblastoma multiforme; somatic mutation).|R -> L (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> S (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> H (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> C (in colorectal cancer and glioma samples; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha- ketoglutarate but instead alpha- ketoglutarate is converted to R(-)-2- hydroxyglutarate).		2-oxoglutarate metabolic process|cellular lipid metabolic process|glyoxylate cycle|isocitrate metabolic process|NADPH regeneration|tricarboxylic acid cycle	cytosol|peroxisomal matrix	isocitrate dehydrogenase (NADP+) activity|magnesium ion binding|NAD binding|protein homodimerization activity	p.R132H(2023)|p.R132C(344)|p.R132?(210)|p.R132G(117)|p.R132S(79)|p.R132L(58)|p.R132V(1)|p.G131_R132>VL(1)		central_nervous_system(2156)|haematopoietic_and_lymphoid_tissue(606)|bone(74)|thyroid(22)|large_intestine(4)|skin(2)|prostate(2)|autonomic_ganglia(1)|soft_tissue(1)	2868				Epithelial(149;0.0322)|LUSC - Lung squamous cell carcinoma(261;0.0711)|Lung(261;0.136)		ATAAGCATGACGACCTATGAT	0.393			Mis		gliobastoma 								23	52					0	0	0.003330	0	0
TGM6	343641	broad.mit.edu	37	20	2411182	2411182	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr20:2411182T>C	uc002wfy.1	+	11	1830	c.1769T>C	c.(1768-1770)GTC>GCC	p.V590A	TGM6_uc010gal.1_Missense_Mutation_p.V590A	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	590					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	ATGTGCCTTGTCACCAAAGGA	0.458													4	57					0	0	0.000602	0	0
FAM182B	728882	broad.mit.edu	37	20	25848629	25848629	+	RNA	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr20:25848629C>T	uc002wvd.1	-	1		c.158G>A								Homo sapiens cDNA FLJ30282 fis, clone BRACE2002803.												0						gctgggatgccgtgctgcttc	0													3	6					0	0	0.000602	0	0
TPX2	22974	broad.mit.edu	37	20	30388772	30388772	+	Splice_Site	SNP	G	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr20:30388772G>C	uc002wwp.1	+	18	2832	c.2134_splice	c.e18-1	p.V712_splice	TPX2_uc010gdv.1_Splice_Site_p.V748_splice	NM_012112	NP_036244	Q9ULW0	TPX2_HUMAN	TPX2, microtubule-associated protein homolog						activation of protein kinase activity|apoptosis|cell division|cell proliferation|mitosis|regulation of mitotic spindle organization	cytoplasm|microtubule|nucleus|spindle pole	ATP binding|GTP binding|protein kinase binding			large_intestine(1)|ovary(1)	2			Epithelial(4;0.000771)|Colorectal(19;0.00306)|all cancers(5;0.004)|COAD - Colon adenocarcinoma(19;0.0347)|OV - Ovarian serous cystadenocarcinoma(3;0.0656)			TTACTTTGCAGGTGCATAAGG	0.398													9	142					0	0	0.008291	0	0
COL20A1	57642	broad.mit.edu	37	20	61960983	61960983	+	Silent	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr20:61960983G>A	uc011aau.1	+	35	3928	c.3828G>A	c.(3826-3828)GGG>GGA	p.G1276G	COL20A1_uc011aav.1_Silent_p.G1103G	NM_020882	NP_065933	Q9P218	COKA1_HUMAN	collagen, type XX, alpha 1	1276					cell adhesion	collagen|extracellular space	structural molecule activity			central_nervous_system(1)	1	all_cancers(38;1.39e-10)					GGCAGCAGGGGGCTAGCACCC	0.662													4	21					0	0	0.009096	0	0
ZNF512B	57473	broad.mit.edu	37	20	62598777	62598777	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr20:62598777T>C	uc002yhl.1	-	3	275	c.221A>G	c.(220-222)AAG>AGG	p.K74R		NM_020713	NP_065764	Q96KM6	Z512B_HUMAN	zinc finger protein 512B	74					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(38;2.14e-11)|all_epithelial(29;3.41e-13)|Lung NSC(23;3.41e-09)|all_lung(23;1.06e-08)					TGGCCGCCCCTTTTTCTTCCC	0.632													4	150					0	0	0.000602	0	0
OSBP2	23762	broad.mit.edu	37	22	31137232	31137232	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr22:31137232C>G	uc003aiy.1	+	2	833	c.729C>G	c.(727-729)ATC>ATG	p.I243M	OSBP2_uc011ala.1_Missense_Mutation_p.I78M|OSBP2_uc010gwc.1_Missense_Mutation_p.I70M|OSBP2_uc003aix.1_Missense_Mutation_p.I243M|OSBP2_uc011alb.1_Missense_Mutation_p.I243M|OSBP2_uc003aiz.1_Missense_Mutation_p.I243M	NM_030758	NP_110385	Q969R2	OSBP2_HUMAN	oxysterol binding protein 2 isoform a	243	PH.				lipid transport	membrane	lipid binding			breast(1)|skin(1)	2						CTTGTGGTATCTTGCTGACCA	0.597													4	65					0	0	0.009096	0	0
APOBEC3F	200316	broad.mit.edu	37	22	39439012	39439012	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr22:39439012C>T	uc003aww.2	+	2	381	c.88C>T	c.(88-90)CGG>TGG	p.R30W	APOBEC3F_uc003awv.2_Missense_Mutation_p.R30W|APOBEC3F_uc011aog.1_Missense_Mutation_p.R30W	NM_145298	NP_660341	Q9HC16	ABC3G_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic	30					base conversion or substitution editing|DNA cytosine deamination|innate immune response|interspecies interaction between organisms|negative regulation of retroviral genome replication|negative regulation of transposition|positive regulation of defense response to virus by host|response to virus|viral reproduction	apolipoprotein B mRNA editing enzyme complex|cytosol|mitochondrion	cytidine deaminase activity|dCTP deaminase activity|protein homodimerization activity|RNA binding|zinc ion binding				0	Melanoma(58;0.04)					CCTTTCTCGTCGGAATACCGT	0.488													5	23					0	0	0.001984	0	0
BTD	686	broad.mit.edu	37	3	15686764	15686764	+	Silent	SNP	C	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr3:15686764C>A	uc003cah.2	+	4	1504	c.1401C>A	c.(1399-1401)GGC>GGA	p.G467G	BTD_uc011avv.1_Silent_p.G469G|BTD_uc011avw.1_Silent_p.G469G|BTD_uc011avx.1_Silent_p.G447G	NM_000060	NP_000051	P43251	BTD_HUMAN	biotinidase precursor	467					central nervous system development|epidermis development|nitrogen compound metabolic process	extracellular space	biotin carboxylase activity|biotinidase activity				0						GGGGTCTTGGCTTCGACACCT	0.507													4	121					0.00909568	0.00920938	0.009096	1	0
NEK4	6787	broad.mit.edu	37	3	52802575	52802575	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr3:52802575G>A	uc003dfq.3	-	2	328	c.139C>T	c.(139-141)CGG>TGG	p.R47W	NEK4_uc011bej.1_Intron|NEK4_uc003dfr.2_Missense_Mutation_p.R47W	NM_003157	NP_003148	P51957	NEK4_HUMAN	NIMA-related kinase 4	47	Protein kinase.				cell division|mitosis	nucleus	ATP binding|metal ion binding|protein serine/threonine kinase activity			large_intestine(1)	1				BRCA - Breast invasive adenocarcinoma(193;7.44e-05)|Kidney(197;0.000711)|KIRC - Kidney renal clear cell carcinoma(197;0.00086)|OV - Ovarian serous cystadenocarcinoma(275;0.0513)		GCAGCTCGCCGCTCTCGGCTA	0.453													5	106					0	0	0.003080	0	0
PLXNA1	5361	broad.mit.edu	37	3	126748802	126748802	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr3:126748802G>C	uc003ejg.2	+	27	4891	c.4887G>C	c.(4885-4887)AAG>AAC	p.K1629N	PLXNA1_uc003ejh.2_Missense_Mutation_p.K297N	NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1652	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		GCGGCACCAAGCTGTGGCACC	0.657													3	110					0	0	0.009096	0	0
TMCC1	23023	broad.mit.edu	37	3	129547187	129547187	+	Missense_Mutation	SNP	T	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr3:129547187T>G	uc003emz.3	-	4	536	c.35A>C	c.(34-36)GAC>GCC	p.D12A	TMCC1_uc010htg.2_Intron	NM_001017395	NP_001017395	O94876	TMCC1_HUMAN	transmembrane and coiled-coil domain family 1	12						integral to membrane				skin(1)	1						AGGATCAGGGTCCTCAAATAA	0.393													5	130					0	0	0.004482	0	0
PHC3	80012	broad.mit.edu	37	3	169815126	169815126	+	Silent	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr3:169815126T>C	uc010hws.1	-	15	2908	c.2844A>G	c.(2842-2844)GGA>GGG	p.G948G	PHC3_uc003fgl.2_Silent_p.G960G	NM_024947	NP_079223	Q8NDX5	PHC3_HUMAN	polyhomeotic like 3	948	SAM.				multicellular organismal development	PcG protein complex	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2	all_cancers(22;2.67e-22)|all_epithelial(15;4.73e-27)|all_lung(20;6.31e-17)|Lung NSC(18;2.61e-16)|Ovarian(172;0.000337)|Breast(254;0.169)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.0655)			GAAGGGCCTGTCCATCAATCT	0.448													3	104					0	0	0.004672	0	0
PDE6B	5158	broad.mit.edu	37	4	661718	661718	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr4:661718C>T	uc003gap.2	+	21	2479	c.2426C>T	c.(2425-2427)GCG>GTG	p.A809V	PDE6B_uc003gao.3_Missense_Mutation_p.A809V|PDE6B_uc011buy.1_Missense_Mutation_p.A530V|PDE6B_uc011buz.1_Missense_Mutation_p.A241V	NM_000283	NP_000274	P35913	PDE6B_HUMAN	phosphodiesterase 6B isoform 1	809					cytosolic calcium ion homeostasis|GMP metabolic process|phototransduction, visible light|platelet activation|visual perception	cytosol|membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding				0						GAGTGGAAGGCGCTGGCTGAT	0.562													4	181					0	0	0.000602	0	0
TMEM175	84286	broad.mit.edu	37	4	944293	944293	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr4:944293G>C	uc003gbq.2	+	4	375	c.277G>C	c.(277-279)GCA>CCA	p.A93P	TMEM175_uc010ibl.1_Missense_Mutation_p.A93P|TMEM175_uc003gbp.1_Missense_Mutation_p.A11P|TMEM175_uc003gbr.2_Missense_Mutation_p.A11P|TMEM175_uc003gbu.2_Missense_Mutation_p.A11P|TMEM175_uc003gbs.2_5'UTR|TMEM175_uc003gbt.2_5'UTR|TMEM175_uc003gbv.2_5'UTR|TMEM175_uc010ibm.2_5'Flank	NM_032326	NP_115702	Q9BSA9	TM175_HUMAN	transmembrane protein 175	93	Helical; (Potential).					integral to membrane					0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)			AGTGGCCTGGGCAGCACACAC	0.597													10	92					0	0	0.013537	0	0
CWH43	80157	broad.mit.edu	37	4	49000535	49000535	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr4:49000535C>G	uc003gyv.2	+	6	954	c.772C>G	c.(772-774)CGT>GGT	p.R258G	CWH43_uc011bzl.1_Missense_Mutation_p.R231G	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	258					GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						TTTGTGGTTTCGTGGTACTGG	0.443													11	126					0	0	0.010729	0	0
KDR	3791	broad.mit.edu	37	4	55981079	55981079	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr4:55981079T>C	uc003has.2	-	5	922	c.620A>G	c.(619-621)GAA>GGA	p.E207G	KDR_uc003hat.1_Missense_Mutation_p.E207G|KDR_uc011bzx.1_Missense_Mutation_p.E207G	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	207	Ig-like C2-type 2.|Extracellular (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(16)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|stomach(2)|skin(2)|ovary(2)|kidney(1)	33	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)	CTGGTAACTTTCATCATTAAT	0.373			Mis		NSCLC|angiosarcoma				Familial_Infantile_Hemangioma	TSP Lung(20;0.16)			3	48					0	0	0.000602	0	0
MUC7	4589	broad.mit.edu	37	4	71347033	71347033	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr4:71347033C>T	uc011cat.1	+	4	860	c.572C>T	c.(571-573)GCC>GTC	p.A191V	MUC7_uc011cau.1_Missense_Mutation_p.A191V|MUC7_uc003hfj.2_Missense_Mutation_p.A191V|uc011cav.1_RNA	NM_001145006	NP_001138478	Q8TAX7	MUC7_HUMAN	mucin 7, secreted precursor	191	2.|Thr-rich.					extracellular region	protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4			Lung(101;0.211)			ACCACAGCTGCCCCACCCACA	0.587													4	232					0	0	0.009096	0	0
DNAH5	1767	broad.mit.edu	37	5	13792273	13792273	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr5:13792273T>C	uc003jfd.2	-	50	8320	c.8278A>G	c.(8278-8280)AGA>GGA	p.R2760G		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2760	AAA 3 (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					ACAGAATCTCTCACTTCTTCT	0.423									Kartagener_syndrome				3	55					0	0	0.009096	0	0
PDZD2	23037	broad.mit.edu	37	5	32090257	32090257	+	Missense_Mutation	SNP	C	T	T	rs147353592		TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr5:32090257C>T	uc003jhl.2	+	20	7091	c.6703C>T	c.(6703-6705)CGG>TGG	p.R2235W	PDZD2_uc003jhm.2_Missense_Mutation_p.R2235W	NM_178140	NP_835260	O15018	PDZD2_HUMAN	PDZ domain containing 2	2235					cell adhesion	cell-cell junction|endoplasmic reticulum|extracellular region|nucleus				central_nervous_system(4)|ovary(2)|skin(2)|large_intestine(1)	9						CCATTTTGGACGGGAGGGTCA	0.632													40	360					0	0	0.014410	0	0
BDP1	55814	broad.mit.edu	37	5	70806830	70806830	+	Missense_Mutation	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr5:70806830A>G	uc003kbp.1	+	17	4174	c.3911A>G	c.(3910-3912)AAG>AGG	p.K1304R	BDP1_uc003kbn.1_Missense_Mutation_p.K1304R|BDP1_uc003kbo.2_Missense_Mutation_p.K1304R	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	1304	9; approximate.|9 X 55 AA repeats of G-R-R-X-I-S-P-X-E-N- G-X-E-E-V-K-P-X-X-E-M-E-T-D-L-K-X-T-G-R- E-X-X-X-R-E-K-T-X-E-X-X-D-A-X-E-E-I-D-X- D-L-E-E-T.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		ACTGAGGAAAAGGTGGCAGAA	0.393													3	57					0	0	0.004672	0	0
MAP1B	4131	broad.mit.edu	37	5	71493611	71493611	+	Missense_Mutation	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr5:71493611A>G	uc003kbw.3	+	5	4670	c.4429A>G	c.(4429-4431)AAA>GAA	p.K1477E	MAP1B_uc010iyw.1_Missense_Mutation_p.K1494E|MAP1B_uc010iyx.1_Missense_Mutation_p.K1351E|MAP1B_uc010iyy.1_Missense_Mutation_p.K1351E	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	1477						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)		CCAAGAAAAGAAAACTGATGA	0.403													16	32					0	0	0.004990	0	0
AQPEP	206338	broad.mit.edu	37	5	115298645	115298645	+	Silent	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr5:115298645C>T	uc003kro.2	+	1	495	c.331C>T	c.(331-333)CTG>TTG	p.L111L	AQPEP_uc003krp.2_RNA|uc003krn.1_5'UTR	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	111	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						CGATCTGGAGCTGTGGCCGCA	0.701													17	77					0	0	0.014323	0	0
CLK4	57396	broad.mit.edu	37	5	178045583	178045583	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr5:178045583G>C	uc003mjf.1	-	3	466	c.358C>G	c.(358-360)CAC>GAC	p.H120D	CLK4_uc003mjg.1_Missense_Mutation_p.H84D|CLK4_uc010jku.1_5'UTR|CLK4_uc003mjh.1_5'UTR|CLK4_uc010jkv.1_RNA|CLK4_uc011dgg.1_Missense_Mutation_p.H120D|CLK4_uc011dgh.1_5'UTR|CLK4_uc011dgi.1_Missense_Mutation_p.H120D|CLK4_uc011dgj.1_Missense_Mutation_p.H120D|CLK4_uc003mji.2_Missense_Mutation_p.H120D	NM_020666	NP_065717	Q9HAZ1	CLK4_HUMAN	CDC-like kinase 4	120						nucleus	ATP binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(1)	1	all_cancers(89;0.000969)|Renal(175;0.000159)|all_epithelial(37;0.000451)|Lung NSC(126;0.00545)|all_lung(126;0.00918)	all_cancers(40;0.0272)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.235)		CTTGAACAGTGTCTATTGCGC	0.403													4	195					0	0	0.009096	0	0
FOXQ1	94234	broad.mit.edu	37	6	1313391	1313391	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr6:1313391G>A	uc003mtl.3	+	1	717	c.452G>A	c.(451-453)GGC>GAC	p.G151D		NM_033260	NP_150285	Q9C009	FOXQ1_HUMAN	forkhead box Q1	151	Fork-head.				DNA fragmentation involved in apoptotic nuclear change|embryo development|hair follicle morphogenesis|pattern specification process|positive regulation of caspase activity|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	caspase regulator activity|DNA bending activity|double-stranded DNA binding|estrogen receptor binding|promoter binding|sequence-specific DNA binding|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|ubiquitin conjugating enzyme binding				0	Ovarian(93;0.0733)	Breast(5;0.052)|all_lung(73;0.0713)|all_hematologic(90;0.0895)		OV - Ovarian serous cystadenocarcinoma(45;0.0954)|BRCA - Breast invasive adenocarcinoma(62;0.18)		TACCTCATGGGCAAGTTCCCC	0.652													4	65					0	0	0.009096	0	0
CAP2	10486	broad.mit.edu	37	6	17421817	17421817	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr6:17421817C>G	uc003ncb.2	+	2	274	c.31C>G	c.(31-33)CTG>GTG	p.L11V	CAP2_uc010jpk.1_RNA|CAP2_uc011dja.1_Missense_Mutation_p.L11V|CAP2_uc011djb.1_Missense_Mutation_p.L11V|CAP2_uc011djc.1_Missense_Mutation_p.L11V|CAP2_uc011djd.1_Missense_Mutation_p.L11V	NM_006366	NP_006357	P40123	CAP2_HUMAN	adenylyl cyclase-associated protein 2	11					activation of adenylate cyclase activity|axon guidance|cytoskeleton organization|establishment or maintenance of cell polarity|signal transduction	plasma membrane	actin binding			ovary(1)	1	Breast(50;0.0333)|Ovarian(93;0.0386)	all_hematologic(90;0.0466)	all cancers(50;0.194)|Epithelial(50;0.227)			GGTGGAAAGACTGGAACGAGC	0.567													4	123					0	0	0.009096	0	0
NKAPL	222698	broad.mit.edu	37	6	28227547	28227547	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr6:28227547C>T	uc003nkt.2	+	1	450	c.398C>T	c.(397-399)GCG>GTG	p.A133V	ZKSCAN4_uc011dlb.1_5'Flank	NM_001007531	NP_001007532	Q5M9Q1	NKAPL_HUMAN	NFKB activating protein-like	133										upper_aerodigestive_tract(1)|ovary(1)	2						GAATTGGGAGCGCCTGAAGTG	0.537													4	148					0	0	0.009096	0	0
TRIM15	89870	broad.mit.edu	37	6	30138337	30138337	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr6:30138337T>C	uc010jrx.2	+	5	1270	c.791T>C	c.(790-792)ATC>ACC	p.I264T		NM_033229	NP_150232	Q9C019	TRI15_HUMAN	tripartite motif protein 15	264					mesodermal cell fate determination	intracellular	zinc ion binding				0						GTCAAGAAGATCCGTGATTTC	0.483													3	89					0	0	0.009096	0	0
NOTCH4	4855	broad.mit.edu	37	6	32181967	32181967	+	Missense_Mutation	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr6:32181967A>G	uc003obb.2	-	13	2226	c.2087T>C	c.(2086-2088)ATC>ACC	p.I696T	NOTCH4_uc011dpu.1_RNA|NOTCH4_uc011dpv.1_RNA	NM_004557	NP_004548	Q99466	NOTC4_HUMAN	notch4 preproprotein	696	Extracellular (Potential).|EGF-like 18.				cell fate determination|embryo development|hemopoiesis|mammary gland development|negative regulation of endothelial cell differentiation|Notch receptor processing|Notch signaling pathway|patterning of blood vessels|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|protein heterodimerization activity|receptor activity			lung(8)|ovary(5)|breast(4)|central_nervous_system(3)|upper_aerodigestive_tract(1)|skin(1)	22						GGGTGCAGAGATGCAGCCCCC	0.587													4	184					0	0	0.001984	0	0
ZNF76	7629	broad.mit.edu	37	6	35255527	35255527	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr6:35255527G>A	uc003oki.1	+	5	542	c.337G>A	c.(337-339)GTA>ATA	p.V113I	ZNF76_uc011dsy.1_Missense_Mutation_p.V113I|ZNF76_uc011dsz.1_Missense_Mutation_p.V113I|ZNF76_uc003okj.1_Missense_Mutation_p.V113I|ZNF76_uc011dsx.1_Missense_Mutation_p.V113I	NM_003427	NP_003418	P36508	ZNF76_HUMAN	zinc finger protein 76 (expressed in testis)	113					regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CATCCTGGCCGTACAGACAGA	0.607													4	56					0	0	0.009096	0	0
TREML2	79865	broad.mit.edu	37	6	41160191	41160191	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr6:41160191G>A	uc010jxm.1	-	5	1119	c.940C>T	c.(940-942)CCC>TCC	p.P314S		NM_024807	NP_079083	Q5T2D2	TRML2_HUMAN	triggering receptor expressed on myeloid	314	Cytoplasmic (Potential).				T cell activation	cell surface|integral to membrane|plasma membrane	protein binding|receptor activity			ovary(1)|central_nervous_system(1)	2	Ovarian(28;0.0418)|Colorectal(47;0.196)					TCCACATAGGGCTCTGGTCTT	0.587													6	38					0	0	0.001984	0	0
DDX43	55510	broad.mit.edu	37	6	74124393	74124393	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr6:74124393C>T	uc003pgw.2	+	14	2073	c.1729C>T	c.(1729-1731)CGC>TGC	p.R577C		NM_018665	NP_061135	Q9NXZ2	DDX43_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 43	577	Helicase C-terminal.					intracellular	ATP binding|ATP-dependent RNA helicase activity|RNA binding			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4						CCGAATAGGGCGCACGGGAAG	0.428													4	105					0	0	0.009096	0	0
PRDM1	639	broad.mit.edu	37	6	106553291	106553291	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr6:106553291G>A	uc003prd.2	+	5	1490	c.1256G>A	c.(1255-1257)GGC>GAC	p.G419D	PRDM1_uc003pre.2_Missense_Mutation_p.G285D	NM_001198	NP_001189	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain isoform	419					negative regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(54)|ovary(1)|skin(1)	56	Breast(9;0.022)	all_cancers(87;2.2e-31)|all_epithelial(87;2.03e-21)|Acute lymphoblastic leukemia(125;4.99e-11)|all_lung(197;7.55e-09)|all_hematologic(75;5.82e-08)|Lung NSC(302;1.28e-06)|Colorectal(196;0.0112)|Ovarian(999;0.0365)		all cancers(137;1.83e-46)|Epithelial(106;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(136;1.99e-20)|GBM - Glioblastoma multiforme(226;3.72e-11)|BRCA - Breast invasive adenocarcinoma(108;1.38e-05)		CCCCCCTACGGCATGAATTGT	0.587			D|N|Mis|F|S		DLBCL								8	56					0	0	0.006214	0	0
ARID1B	57492	broad.mit.edu	37	6	157522373	157522373	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr6:157522373C>G	uc003qqn.2	+	18	4743	c.4591C>G	c.(4591-4593)CAC>GAC	p.H1531D	ARID1B_uc003qqo.2_Missense_Mutation_p.H1491D|ARID1B_uc003qqp.2_Missense_Mutation_p.H1478D	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	1536	Pro-rich.				chromatin-mediated maintenance of transcription|nervous system development|transcription, DNA-dependent	SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			ovary(1)|breast(1)	2		Breast(66;0.000162)|Ovarian(120;0.0265)		OV - Ovarian serous cystadenocarcinoma(65;3.19e-17)|BRCA - Breast invasive adenocarcinoma(81;1.01e-05)		ACTGCCAAATCACATCTCCAG	0.597													5	106					0	0	0.001168	0	0
IL6	3569	broad.mit.edu	37	7	22769188	22769188	+	Missense_Mutation	SNP	A	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr7:22769188A>T	uc011jyn.1	+	5	839	c.380A>T	c.(379-381)GAG>GTG	p.E127V	uc010kun.1_5'Flank|IL6_uc011jyo.1_Missense_Mutation_p.E127V|IL6_uc011jyp.1_Missense_Mutation_p.E51V|IL6_uc003svj.3_Missense_Mutation_p.E127V|IL6_uc011jyq.1_Missense_Mutation_p.E181V	NM_000600	NP_000591	P05231	IL6_HUMAN	interleukin 6 precursor	127					acute-phase response|cellular response to hydrogen peroxide|defense response to Gram-negative bacterium|defense response to Gram-positive bacterium|defense response to virus|endocrine pancreas development|glucagon secretion|hepatic immune response|interleukin-6-mediated signaling pathway|negative regulation of apoptosis|negative regulation of cell proliferation|negative regulation of chemokine biosynthetic process|negative regulation of collagen biosynthetic process|negative regulation of fat cell differentiation|negative regulation of lipid storage|neuron projection development|neutrophil apoptosis|platelet activation|positive regulation of acute inflammatory response|positive regulation of anti-apoptosis|positive regulation of B cell activation|positive regulation of chemokine production|positive regulation of immunoglobulin secretion|positive regulation of interleukin-6 production|positive regulation of osteoblast differentiation|positive regulation of peptidyl-serine phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of smooth muscle cell proliferation|positive regulation of T cell proliferation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of translation|positive regulation of tyrosine phosphorylation of Stat3 protein|regulation of vascular endothelial growth factor production|response to glucocorticoid stimulus|response to peptidoglycan	extracellular space|interleukin-6 receptor complex	cytokine activity|growth factor activity|interleukin-6 receptor binding				0					Arsenic trioxide(DB01169)|Bicalutamide(DB01128)|Ginseng(DB01404)|Simvastatin(DB00641)	GTATACCTAGAGTACCTCCAG	0.458													11	65					0	0	0.010729	0	0
ADCYAP1R1	117	broad.mit.edu	37	7	31124371	31124371	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr7:31124371T>C	uc003tca.1	+	8	681	c.458T>C	c.(457-459)GTG>GCG	p.V153A	ADCYAP1R1_uc003tcb.1_Missense_Mutation_p.V132A|ADCYAP1R1_uc003tcc.1_Missense_Mutation_p.V153A|ADCYAP1R1_uc003tcd.1_Missense_Mutation_p.V153A|ADCYAP1R1_uc003tce.1_Missense_Mutation_p.V153A|ADCYAP1R1_uc003tcf.1_5'Flank	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	153	Extracellular (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						TACCTGTCAGTGAAGGCCCTC	0.567													4	171					0	0	0.001984	0	0
ADCYAP1R1	117	broad.mit.edu	37	7	31124392	31124392	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr7:31124392G>C	uc003tca.1	+	8	702	c.479G>C	c.(478-480)GGC>GCC	p.G160A	ADCYAP1R1_uc003tcb.1_Missense_Mutation_p.G139A|ADCYAP1R1_uc003tcc.1_Missense_Mutation_p.G160A|ADCYAP1R1_uc003tcd.1_Missense_Mutation_p.G160A|ADCYAP1R1_uc003tce.1_Missense_Mutation_p.G160A|ADCYAP1R1_uc003tcf.1_5'Flank	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1	160	Helical; Name=1; (Potential).				activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						TACACGGTTGGCTACAGCACA	0.562													5	189					0	0	0.003080	0	0
PURB	5814	broad.mit.edu	37	7	44924053	44924053	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr7:44924053C>T	uc003tme.2	-	1	908	c.895G>A	c.(895-897)GGC>AGC	p.G299S		NM_033224	NP_150093	Q96QR8	PURB_HUMAN	purine-rich element binding protein B	299					regulation of myeloid cell differentiation	DNA replication factor A complex	mRNA binding|single-stranded DNA binding|transcription factor binding				0						TCGCCGCCGCCGCTGCCCCCA	0.587													5	212					0	0	0.001168	0	0
PKD1L1	168507	broad.mit.edu	37	7	47920383	47920383	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr7:47920383T>C	uc003tny.1	-	21	3463	c.3463A>G	c.(3463-3465)ACA>GCA	p.T1155A		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	1155	Extracellular (Potential).|REJ.				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						GGCTTGATTGTCACTGTCTGT	0.468													3	83					0	0	0.009096	0	0
GRB10	2887	broad.mit.edu	37	7	50686969	50686969	+	Silent	SNP	T	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr7:50686969T>C	uc003tpi.2	-	6	706	c.675A>G	c.(673-675)GAA>GAG	p.E225E	GRB10_uc003tph.3_Silent_p.E167E|GRB10_uc003tpj.2_Silent_p.E225E|GRB10_uc003tpk.2_Silent_p.E225E|GRB10_uc010kzb.2_Silent_p.E167E|GRB10_uc003tpl.2_Silent_p.E219E|GRB10_uc003tpm.2_Silent_p.E167E|GRB10_uc003tpn.2_Silent_p.E167E	NM_005311	NP_005302	Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10 isoform	225	Ras-associating.				insulin receptor signaling pathway|insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway	cytosol|plasma membrane	insulin receptor binding|insulin receptor binding|SH3/SH2 adaptor activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)	6	Glioma(55;0.08)|all_neural(89;0.245)					GCTCATGGTCTTCCAAGCACC	0.443									Russell-Silver_syndrome				5	101					0	0	0.003080	0	0
SBDSP1	155370	broad.mit.edu	37	7	72302248	72302248	+	RNA	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr7:72302248A>G	uc003twf.2	+	3		c.600A>G			SBDSP1_uc011kel.1_RNA|SBDSP1_uc003twg.2_RNA|SBDSP1_uc003twh.2_RNA|SBDSP1_uc003twe.2_RNA	NR_001588				Homo sapiens Shwachman-Bodian-Diamond syndrome pseudogene, mRNA (cDNA clone IMAGE:4329436).												0						ATGTTTAGGGACATTGCAATT	0.383													3	88					0	0	0.009096	0	0
TRIM24	8805	broad.mit.edu	37	7	138268733	138268733	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr7:138268733G>A	uc003vuc.2	+	18	3147	c.2932G>A	c.(2932-2934)GAA>AAA	p.E978K	TRIM24_uc003vub.2_Missense_Mutation_p.E944K	NM_015905	NP_056989	O15164	TIF1A_HUMAN	transcriptional intermediary factor 1 alpha	978	Bromo.				cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(3)|ovary(2)|stomach(1)|breast(1)|skin(1)	8						AAACTGTGCTGAATTCAATGA	0.388													3	60					0	0	0.009096	0	0
ARHGEF35	445328	broad.mit.edu	37	7	143884337	143884337	+	Silent	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr7:143884337C>T	uc003wdz.1	-	2	1258	c.1140G>A	c.(1138-1140)GAG>GAA	p.E380E		NM_001003702	NP_001003702	A5YM69	ARG35_HUMAN	Rho guanine nucleotide exchange factor (GEF)	380	Glu-rich.										0						CATCCCAACTCTCTGGCTCTT	0.557													10	76					0	0	0.013537	0	0
INTS9	55756	broad.mit.edu	37	8	28625815	28625815	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr8:28625815C>G	uc003xha.2	-	17	2124	c.1825G>C	c.(1825-1827)GAG>CAG	p.E609Q	INTS9_uc011lav.1_Missense_Mutation_p.E585Q|INTS9_uc011law.1_Missense_Mutation_p.E588Q|INTS9_uc011lax.1_Missense_Mutation_p.E502Q|INTS9_uc010lvc.2_RNA	NM_018250	NP_060720	Q9NV88	INT9_HUMAN	integrator complex subunit 9 isoform 1	609					snRNA processing	integrator complex	protein binding			central_nervous_system(1)|pancreas(1)	2		Ovarian(32;0.0439)		KIRC - Kidney renal clear cell carcinoma(542;0.127)|Kidney(114;0.152)		GCTGTGTCCTCCACCTTAATA	0.502													10	170					0	0	0.010729	0	0
PI15	51050	broad.mit.edu	37	8	75737530	75737530	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr8:75737530C>T	uc003yal.2	+	2	225	c.46C>T	c.(46-48)CTC>TTC	p.L16F	uc003yak.1_Intron|PI15_uc003yam.2_Missense_Mutation_p.L16F	NM_015886	NP_056970	O43692	PI15_HUMAN	protease inhibitor 15 preproprotein	16						extracellular region	peptidase inhibitor activity			central_nervous_system(2)|ovary(1)	3	Breast(64;0.137)		BRCA - Breast invasive adenocarcinoma(89;0.104)|Epithelial(68;0.118)			GTTCTCCCTTCTCTGTGAAGC	0.463													9	256					0	0	0.006214	0	0
TG	7038	broad.mit.edu	37	8	133912511	133912511	+	Silent	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr8:133912511G>A	uc003ytw.2	+	15	3401	c.3360G>A	c.(3358-3360)TCG>TCA	p.S1120S	TG_uc010mdw.2_Intron	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	1120	Thyroglobulin type-1 9.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TGCAGGCATCGGGGGCTGGCA	0.622													5	48					0	0	0.001168	0	0
PTK2	5747	broad.mit.edu	37	8	141889587	141889587	+	Silent	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr8:141889587G>A	uc003yvu.2	-	4	575	c.345C>T	c.(343-345)CAC>CAT	p.H115H	PTK2_uc003yvr.2_Silent_p.H14H|PTK2_uc003yvs.2_Silent_p.H115H|PTK2_uc003yvt.2_Silent_p.H137H|PTK2_uc003yvv.2_Intron|PTK2_uc011ljr.1_Silent_p.H115H	NM_153831	NP_722560	Q05397	FAK1_HUMAN	PTK2 protein tyrosine kinase 2 isoform a	115	FERM.				axon guidance|blood coagulation|cellular component disassembly involved in apoptosis|ephrin receptor signaling pathway|growth hormone receptor signaling pathway|integrin-mediated signaling pathway|peptidyl-tyrosine phosphorylation|protein autophosphorylation|regulation of cell adhesion mediated by integrin|signal complex assembly	cytoskeleton|cytosol|focal adhesion	ATP binding|JUN kinase binding|non-membrane spanning protein tyrosine kinase activity|SH2 domain binding|signal transducer activity			ovary(2)|lung(2)|central_nervous_system(1)|skin(1)	6	all_cancers(97;1.05e-15)|all_epithelial(106;2.09e-14)|Lung NSC(106;1.61e-06)|all_lung(105;2.5e-06)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;2.72e-05)|Breast(495;0.159)	BRCA - Breast invasive adenocarcinoma(115;0.137)			CCTCTGGTGGGTGAGCAAGCT	0.463													4	203					0	0	0.000602	0	0
IFNA7	3444	broad.mit.edu	37	9	21201904	21201904	+	Silent	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr9:21201904G>A	uc003zop.1	-	1	301	c.261C>T	c.(259-261)ACC>ACT	p.T87T	IFNA14_uc003zoo.1_Intron	NM_021057	NP_066401	P01567	IFNA7_HUMAN	interferon, alpha 7 precursor	87					blood coagulation|cell-cell signaling|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|interferon-alpha/beta receptor binding				0				GBM - Glioblastoma multiforme(5;4.75e-197)|Lung(24;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)		AGAGATTGAAGGTCTGCTGGA	0.478													3	67					0	0	0.004672	0	0
LOC442421	442421	broad.mit.edu	37	9	66500808	66500808	+	RNA	SNP	T	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr9:66500808T>G	uc004aed.1	+	3		c.901T>G								Homo sapiens similar to prostaglandin E receptor 4, subtype EP4; PGE receptor, EP4 subtype; prostaglandin E2 receptor, mRNA (cDNA clone IMAGE:5288780).												0						CCACCTACGGTCGGTTGTGTG	0.632													6	26					0	0	0.001168	0	0
FOXD4L5	653427	broad.mit.edu	37	9	70177705	70177705	+	Silent	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr9:70177705C>T	uc010moc.2	-	1	1111	c.279G>A	c.(277-279)CCG>CCA	p.P93P		NM_001126334	NP_001119806	Q5VV16	FX4L5_HUMAN	forkhead box D4-like 5	93					axon extension involved in axon guidance|cartilage development|dichotomous subdivision of terminal units involved in ureteric bud branching|embryo development|enteric nervous system development|iridophore differentiation|lateral line nerve glial cell development|melanocyte differentiation|neural crest cell migration|pattern specification process|peripheral nervous system development|positive regulation of BMP signaling pathway|positive regulation of kidney development|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|sympathetic nervous system development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|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				0						CAGACCTTGGCGGTGCCCTGA	0.677													5	270					0	0	0.001984	0	0
RORB	6096	broad.mit.edu	37	9	77257632	77257632	+	Nonsense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr9:77257632C>T	uc004aji.2	+	4	620	c.571C>T	c.(571-573)CAA>TAA	p.Q191*	RORB_uc004ajh.2_Nonsense_Mutation_p.Q180*	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B	191	Hinge (Potential).				eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			ovary(2)|lung(1)|skin(1)	4						ACAGATAAAGCAAGAACCTAT	0.468													10	60					0	0	0.008291	0	0
PCSK5	5125	broad.mit.edu	37	9	78686647	78686647	+	Nonsense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr9:78686647C>T	uc004ajz.2	+	7	1265	c.727C>T	c.(727-729)CGA>TGA	p.R243*	PCSK5_uc004ajy.2_Nonsense_Mutation_p.R243*|PCSK5_uc004aka.2_RNA	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	243	Catalytic.				anterior/posterior pattern formation|cell-cell signaling|cytokine biosynthetic process|embryo implantation|embryonic digestive tract development|embryonic skeletal system development|heart development|kidney development|limb morphogenesis|nerve growth factor processing|nerve growth factor receptor signaling pathway|peptide biosynthetic process|renin secretion into blood stream|respiratory tube development|signal peptide processing|viral assembly, maturation, egress, and release	extracellular space|Golgi lumen|stored secretory granule	peptide binding|serine-type endopeptidase activity			ovary(2)|skin(1)	3						TGAAGGAGTGCGAATGCTGGA	0.512													4	129					0	0	0.009096	0	0
Unknown	0	broad.mit.edu	37	9	78938042	78938042	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr9:78938042C>T	uc004akc.1	+	4	572	c.352C>T	c.(352-354)CGC>TGC	p.R118C						Homo sapiens cDNA FLJ16215 fis, clone CTONG2025610, moderately similar to PC6B.																		TGCAGACTCGCGCCACTGTGT	0.567													3	16					0	0	0.004672	0	0
Unknown	0	broad.mit.edu	37	9	78943022	78943022	+	Silent	SNP	C	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr9:78943022C>T	uc004akc.1	+	5	832	c.612C>T	c.(610-612)AAC>AAT	p.N204N						Homo sapiens cDNA FLJ16215 fis, clone CTONG2025610, moderately similar to PC6B.																		GCATGGCCAACGAGAAGTGCT	0.592													15	343					0	0	0.004007	0	0
TNC	3371	broad.mit.edu	37	9	117849482	117849482	+	Silent	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr9:117849482G>A	uc004bjj.3	-	3	890	c.528C>T	c.(526-528)TGC>TGT	p.C176C	TNC_uc010mvf.2_Silent_p.C176C	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	176	EGF-like 1; incomplete.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						AGCCAGGTTCGCAGACACAGC	0.582													4	141					0	0	0.009096	0	0
ASTN2	23245	broad.mit.edu	37	9	119413978	119413978	+	Silent	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr9:119413978G>A	uc004bjs.1	-	17	3002	c.2901C>T	c.(2899-2901)GAC>GAT	p.D967D	ASTN2_uc004bjr.1_Silent_p.D963D|ASTN2_uc004bjt.1_Silent_p.D916D|ASTN2_uc004bjp.1_Silent_p.D60D|ASTN2_uc004bjq.1_Silent_p.D19D|ASTN2_uc011lxr.1_Silent_p.D19D|ASTN2_uc011lxs.1_Silent_p.D19D|ASTN2_uc011lxt.1_Silent_p.D19D|ASTN2_uc004bjv.1_Silent_p.D19D	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c	967	Extracellular (Potential).					integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						AAATGAGCTGGTCATCTGACA	0.582													5	109					0	0	0.001984	0	0
NUP188	23511	broad.mit.edu	37	9	131760453	131760453	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr9:131760453C>G	uc004bws.1	+	31	3397	c.3375C>G	c.(3373-3375)GAC>GAG	p.D1125E	NUP188_uc004bwu.2_Missense_Mutation_p.D468E	NM_015354	NP_056169	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1125					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|kidney(1)|breast(1)	7						ACCTGACTGACTCTGTGGTGC	0.463													4	266					0	0	0.000602	0	0
SOHLH1	402381	broad.mit.edu	37	9	138589373	138589373	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr9:138589373G>A	uc004cgl.2	-	4	507	c.446C>T	c.(445-447)ACG>ATG	p.T149M	SOHLH1_uc010nbe.2_Missense_Mutation_p.T149M	NM_001012415	NP_001012415	Q5JUK2	SOLH1_HUMAN	spermatogenesis and oogenesis specific basic	149					cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			breast(1)|central_nervous_system(1)	2		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.66e-07)|Epithelial(140;1.11e-06)|all cancers(34;6.45e-05)		GGACGCTCCCGTCCCAGGGTC	0.597													3	41					0	0	0.009096	0	0
LHFPL1	340596	broad.mit.edu	37	X	111914407	111914407	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chrX:111914407G>C	uc004epq.2	-	2	545	c.212C>G	c.(211-213)GCC>GGC	p.A71G	LHFPL1_uc004epp.2_Missense_Mutation_p.A94G|LHFPL1_uc010nqa.2_Intron|LHFPL1_uc010nqb.2_Missense_Mutation_p.A71G	NM_178175	NP_835469	Q86WI0	LHPL1_HUMAN	lipoma HMGIC fusion partner-like 1 precursor	71						integral to membrane					0						ATTGAAGCTGGCATAGCGCCC	0.592													3	57					0	0	0.004672	0	0
FRMD7	90167	broad.mit.edu	37	X	131212491	131212491	+	Silent	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chrX:131212491A>G	uc004ewn.2	-	12	1732	c.1554T>C	c.(1552-1554)AGT>AGC	p.S518S	FRMD7_uc011muy.1_Silent_p.S503S	NM_194277	NP_919253	Q6ZUT3	FRMD7_HUMAN	FERM domain containing 7	518					regulation of neuron projection development	cytoskeleton|growth cone|neuronal cell body	binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)					AGCTATGTGGACTTGTCCTTT	0.493													3	84					0	0	0.009096	0	0
FMR1NB	158521	broad.mit.edu	37	X	147084823	147084823	+	Missense_Mutation	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chrX:147084823A>G	uc004fcm.2	+	2	454	c.380A>G	c.(379-381)AAT>AGT	p.N127S		NM_152578	NP_689791	Q8N0W7	FMR1N_HUMAN	fragile X mental retardation 1 neighbor	127	P-type.|Extracellular (Potential).					integral to membrane				ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					GCTTTGCTGAATTTTTTCTTT	0.333													5	22					0	0	0.001984	0	0
MAGEA12	4111	broad.mit.edu	37	X	151896273	151896273	+	RNA	SNP	C	T	T	rs2471768	by1000genomes	TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chrX:151896273C>T	uc004fgb.2	-	4		c.494G>A						P43365	MAGAC_HUMAN	Homo sapiens melanoma antigen family A, 12, mRNA (cDNA clone MGC:4914 IMAGE:3450217), complete cds.											skin(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)					TTTGAAGCGGCGGTCTTTTAG	0.502													3	33					0	0	0.000602	0	0
UTY	7404	broad.mit.edu	37	Y	15522901	15522901	+	Missense_Mutation	SNP	A	G	G			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chrY:15522901A>G	uc004fsx.1	-	6	1532	c.527T>C	c.(526-528)GTG>GCG	p.V176A	UTY_uc004fsy.2_Missense_Mutation_p.V176A|UTY_uc004fsz.2_Missense_Mutation_p.V176A	NM_007125	NP_009056	O14607	UTY_HUMAN	tetratricopeptide repeat protein isoform 3	176	TPR 3.				chromatin modification	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen				0						GTCTGTGTTCACTTTGAACAT	0.413													18	29					0	0	0.010504	0	0
ARID1A	8289	broad.mit.edu	37	1	27100176	27100176	+	Frame_Shift_Del	DEL	C	-	-			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:27100176delC	uc001bmv.1	+	16	4345	c.3972delC	c.(3970-3972)TACfs	p.Y1324fs	ARID1A_uc001bmt.1_Frame_Shift_Del_p.Y1323fs|ARID1A_uc001bmu.1_Frame_Shift_Del_p.Y1324fs|ARID1A_uc001bmw.1_Frame_Shift_Del_p.Y941fs|ARID1A_uc001bmx.1_Frame_Shift_Del_p.Y170fs|ARID1A_uc009vsm.1_5'UTR|ARID1A_uc009vsn.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1324					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.Y1324fs*1(1)		ovary(124)|pancreas(5)|central_nervous_system(3)|endometrium(3)|kidney(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	142		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)		CTAGCCGCTACCCCCCgcagc	0.517			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								23	131	---	---	---	---					
LMX1A	4009	broad.mit.edu	37	1	165177332	165177334	+	In_Frame_Del	DEL	TGC	-	-			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr1:165177332_165177334delTGC	uc001gcy.1	-	6	1004_1006	c.783_785delGCA	c.(781-786)CAGCAA>CAA	p.261_262QQ>Q	LMX1A_uc001gcz.1_In_Frame_Del_p.261_262QQ>Q|LMX1A_uc001gcw.1_5'UTR|LMX1A_uc001gcx.1_In_Frame_Del_p.12_13QQ>Q	NM_177398	NP_796372	Q8TE12	LMX1A_HUMAN	LIM homeobox transcription factor 1, alpha	261_262	Poly-Gln.|Gln-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(3)|upper_aerodigestive_tract(1)|pancreas(1)	5	all_hematologic(923;0.248)					CTGCTGATCTTGCTGCTGCTGCT	0.567													8	84	---	---	---	---					
NCOA4	8031	broad.mit.edu	37	10	51585027	51585029	+	In_Frame_Del	DEL	AAG	-	-			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr10:51585027_51585029delAAG	uc001jis.3	+	8	1329_1331	c.1126_1128delAAG	c.(1126-1128)AAGdel	p.K377del	PARG_uc001jih.2_Intron|uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron|NCOA4_uc009xon.2_In_Frame_Del_p.K393del|NCOA4_uc010qhd.1_In_Frame_Del_p.K393del|NCOA4_uc010qhe.1_In_Frame_Del_p.K277del|NCOA4_uc010qhf.1_In_Frame_Del_p.K211del|NCOA4_uc001jit.2_In_Frame_Del_p.K377del|NCOA4_uc009xoo.2_In_Frame_Del_p.K377del	NM_001145263	NP_001138735	Q13772	NCOA4_HUMAN	nuclear receptor coactivator 4 isoform 3	377					androgen receptor signaling pathway|male gonad development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	androgen receptor binding|transcription coactivator activity			central_nervous_system(1)|kidney(1)	2						CTTGGAGGCCAAGAAACCATTGT	0.522			T	RET	papillary thyroid 								13	22	---	---	---	---					
ARID5B	84159	broad.mit.edu	37	10	63845531	63845531	+	Frame_Shift_Del	DEL	A	-	-			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr10:63845531delA	uc001jlt.1	+	9	1296	c.1270delA	c.(1270-1272)AAAfs	p.K424fs	ARID5B_uc001jlu.1_Frame_Shift_Del_p.K181fs	NM_032199	NP_115575	Q14865	ARI5B_HUMAN	AT rich interactive domain 5B (MRF1-like)	424					liver development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent		protein binding|transcription regulatory region DNA binding			ovary(2)|upper_aerodigestive_tract(1)|kidney(1)	4	Prostate(12;0.016)|all_hematologic(501;0.215)					CAAACCTCGGAAACAGGAGAA	0.358													58	92	---	---	---	---					
KIAA0913	23053	broad.mit.edu	37	10	75557692	75557693	+	Frame_Shift_Del	DEL	AG	-	-			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr10:75557692_75557693delAG	uc009xrl.2	+	19	3833_3834	c.3801_3802delAG	c.(3799-3804)TCAGGGfs	p.S1267fs	KIAA0913_uc001jve.2_Frame_Shift_Del_p.S1272fs|KIAA0913_uc001jvf.2_Frame_Shift_Del_p.S1267fs|KIAA0913_uc001jvh.2_Splice_Site|KIAA0913_uc001jvi.2_Frame_Shift_Del_p.S702fs|KIAA0913_uc010qkr.1_Frame_Shift_Del_p.S690fs|KIAA0913_uc001jvj.2_Frame_Shift_Del_p.S690fs|KIAA0913_uc009xrn.1_5'Flank	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	1267_1268							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					CATCTTCCTCAGGGGGCCACCA	0.564													30	211	---	---	---	---					
CDON	50937	broad.mit.edu	37	11	125891236	125891237	+	Frame_Shift_Del	DEL	AA	-	-			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr11:125891236_125891237delAA	uc009zbw.2	-	3	383_384	c.255_256delTT	c.(253-258)CTTTCTfs	p.L85fs	CDON_uc001qdc.3_Frame_Shift_Del_p.L85fs|CDON_uc001qdd.3_RNA|CDON_uc009zbx.2_Frame_Shift_Del_p.L85fs	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	85_86	Extracellular (Potential).|Ig-like C2-type 1.				cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	protein binding			ovary(3)|skin(2)|breast(1)	6	all_hematologic(175;0.177)	Breast(109;0.00157)|Lung NSC(97;0.0127)|all_lung(97;0.0133)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.51e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0604)		GAGTTGAGAGAAAGAATTGTCA	0.475													19	74	---	---	---	---					
PTPRR	5801	broad.mit.edu	37	12	71050530	71050532	+	In_Frame_Del	DEL	CTT	-	-			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr12:71050530_71050532delCTT	uc001swi.1	-	13	2248_2250	c.1832_1834delAAG	c.(1831-1836)GAAGGA>GGA	p.E611del	PTPRR_uc001swf.1_RNA|PTPRR_uc001swg.1_RNA|PTPRR_uc001swh.1_In_Frame_Del_p.E366del|PTPRR_uc009zrs.2_In_Frame_Del_p.E460del|PTPRR_uc010stq.1_In_Frame_Del_p.E499del	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	611	Tyrosine-protein phosphatase.|Cytoplasmic (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		TCCACAACTCCTTCTTCTTTCAG	0.433													43	159	---	---	---	---					
CLIP1	6249	broad.mit.edu	37	12	122773037	122773037	+	Frame_Shift_Del	DEL	T	-	-			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr12:122773037delT	uc001ucg.1	-	20	3752	c.3646delA	c.(3646-3648)AGAfs	p.R1216fs	CLIP1_uc001uch.1_Frame_Shift_Del_p.R1205fs|CLIP1_uc001uci.1_Frame_Shift_Del_p.R1170fs|CLIP1_uc001ucj.1_Frame_Shift_Del_p.R791fs	NM_002956	NP_002947	P30622	CLIP1_HUMAN	restin isoform a	1216	Potential.				mitotic prometaphase|positive regulation of microtubule polymerization	centrosome|cytosol|endosome|intermediate filament|kinetochore	nucleic acid binding|protein homodimerization activity|zinc ion binding			ovary(2)|breast(1)	3	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.81e-05)|Epithelial(86;6.85e-05)|BRCA - Breast invasive adenocarcinoma(302;0.226)		AAAGCTTACCTTTTTTTCATT	0.333													7	16	---	---	---	---					
C14orf37	145407	broad.mit.edu	37	14	58605972	58605974	+	In_Frame_Del	DEL	CCT	-	-			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr14:58605972_58605974delCCT	uc001xdc.2	-	2	214_216	c.103_105delAGG	c.(103-105)AGGdel	p.R35del	C14orf37_uc010tro.1_In_Frame_Del_p.R73del|C14orf37_uc001xdd.2_In_Frame_Del_p.R35del|C14orf37_uc001xde.2_In_Frame_Del_p.R35del	NM_001001872	NP_001001872	Q86TY3	CN037_HUMAN	hypothetical protein LOC145407 precursor	35	Extracellular (Potential).					integral to membrane	binding				0						GTGCTATCTCCCTCCTCCTTTCT	0.478													36	110	---	---	---	---					
TRAF4	9618	broad.mit.edu	37	17	27076467	27076468	+	Frame_Shift_Del	DEL	GA	-	-			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr17:27076467_27076468delGA	uc002hcs.2	+	7	1393_1394	c.1285_1286delGA	c.(1285-1287)GAGfs	p.E429fs	TRAF4_uc002hcq.1_Splice_Site_p.S155_splice	NM_004295	NP_004286	Q9BUZ4	TRAF4_HUMAN	TNF receptor-associated factor 4	429	MATH.				apoptosis|positive regulation of JNK cascade|positive regulation of protein homodimerization activity|positive regulation of protein kinase activity|regulation of apoptosis|signal transduction	cytoskeleton|nucleus|perinuclear region of cytoplasm|tight junction	DNA binding|ubiquitin-protein ligase activity|WW domain binding|zinc ion binding			upper_aerodigestive_tract(1)|lung(1)	2	Lung NSC(42;0.01)		Epithelial(11;3.26e-05)|all cancers(11;0.000272)|OV - Ovarian serous cystadenocarcinoma(11;0.235)			CTCCCTGGATGAGAGTTCTCTG	0.554													8	92	---	---	---	---					
SMARCA4	6597	broad.mit.edu	37	19	11106926	11106928	+	In_Frame_Del	DEL	AGA	-	-			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr19:11106926_11106928delAGA	uc002mqf.3	+	10	1915_1917	c.1631_1633delAGA	c.(1630-1635)CAGAAG>CAG	p.K546del	SMARCA4_uc010dxp.2_In_Frame_Del_p.K546del|SMARCA4_uc010dxo.2_In_Frame_Del_p.K546del|SMARCA4_uc002mqg.1_In_Frame_Del_p.K546del|SMARCA4_uc010dxq.2_In_Frame_Del_p.K546del|SMARCA4_uc010dxr.2_In_Frame_Del_p.K546del|SMARCA4_uc002mqj.3_In_Frame_Del_p.K546del|SMARCA4_uc010dxs.2_In_Frame_Del_p.K546del|SMARCA4_uc002mqe.2_In_Frame_Del_p.K546del	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	546					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				CTCATCGACCAGAAGAAGGACAA	0.576			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				29	146	---	---	---	---					
GADD45GIP1	90480	broad.mit.edu	37	19	13065273	13065275	+	In_Frame_Del	DEL	GCT	-	-			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr19:13065273_13065275delGCT	uc002mwb.2	-	2	440_442	c.416_418delAGC	c.(415-420)CAGCGG>CGG	p.Q139del		NM_052850	NP_443082	Q8TAE8	G45IP_HUMAN	growth arrest and DNA-damage-inducible, gamma	139	Poly-Gln.|Potential.				cell cycle|interspecies interaction between organisms	nucleus	protein binding			ovary(1)|skin(1)	2						CAGTTCTCCCGCTGCTGCTGCTG	0.635													7	115	---	---	---	---					
CAD	790	broad.mit.edu	37	2	27462334	27462334	+	Frame_Shift_Del	DEL	G	-	-			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr2:27462334delG	uc002rji.2	+	33	5551	c.5389delG	c.(5389-5391)GGGfs	p.G1797fs	CAD_uc010eyw.2_Frame_Shift_Del_p.G1734fs	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	1797	Linker.				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	CTATATCGATGGGCAGGTACG	0.567													25	69	---	---	---	---					
FBN2	2201	broad.mit.edu	37	5	127782200	127782203	+	Frame_Shift_Del	DEL	TGTT	-	-			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr5:127782200_127782203delTGTT	uc003kuu.2	-	7	1362_1365	c.923_926delAACA	c.(922-927)AAACAGfs	p.K308fs	FBN2_uc003kuv.2_Frame_Shift_Del_p.K275fs|FBN2_uc003kuw.3_Frame_Shift_Del_p.K308fs|FBN2_uc003kux.1_Frame_Shift_Del_p.K308fs	NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	308_309	EGF-like 4; calcium-binding.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		AGTTTCACTCTGTTTGTGACCAGC	0.426													16	75	---	---	---	---					
TRDN	10345	broad.mit.edu	37	6	123759208	123759209	+	Frame_Shift_Ins	INS	-	T	T			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr6:123759208_123759209insT	uc003pzj.1	-	12	1072_1073	c.1050_1051insA	c.(1048-1053)AAAGAGfs	p.K350fs	TRDN_uc003pzk.1_Frame_Shift_Ins_p.K351fs|TRDN_uc003pzl.1_Frame_Shift_Ins_p.K351fs|uc003pzm.1_5'Flank	NM_006073	NP_006064	Q13061	TRDN_HUMAN	triadin	350_351	Lumenal.				muscle contraction	integral to membrane|plasma membrane|sarcoplasmic reticulum membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(226;0.184)		AGTGCAATACCTTTTTTTTCCA	0.337													4	7	---	---	---	---					
EPB41L2	2037	broad.mit.edu	37	6	131229973	131229976	+	Frame_Shift_Del	DEL	TCTT	-	-			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chr6:131229973_131229976delTCTT	uc003qch.2	-	5	1020_1023	c.838_841delAAGA	c.(838-843)AAGAGAfs	p.K280fs	EPB41L2_uc003qcg.1_Frame_Shift_Del_p.K280fs|EPB41L2_uc011eby.1_Frame_Shift_Del_p.K280fs|EPB41L2_uc003qci.2_Frame_Shift_Del_p.K280fs|EPB41L2_uc010kfk.2_Frame_Shift_Del_p.K280fs|EPB41L2_uc010kfl.1_Frame_Shift_Del_p.K280fs	NM_001431	NP_001422	O43491	E41L2_HUMAN	erythrocyte membrane protein band 4.1-like 2	280_281	FERM.				cortical actin cytoskeleton organization	extrinsic to membrane|plasma membrane|spectrin	actin binding|structural molecule activity			central_nervous_system(1)|skin(1)	2	Breast(56;0.0639)			OV - Ovarian serous cystadenocarcinoma(155;0.0271)|GBM - Glioblastoma multiforme(226;0.0355)		CTCAGTTGTCTCTTTATTTCTTTA	0.284													16	39	---	---	---	---					
ATRX	546	broad.mit.edu	37	X	76875860	76875861	+	Splice_Site	DEL	CA	-	-			TCGA-HT-7688-01A-11D-2253-08	TCGA-HT-7688-10A-01D-2253-08									Somatic	Phase_I	Capture				Illumina GAIIx	35602eec-d9a6-4b1f-b4bf-0304d6f0337a	b1e48d0a-6c17-45b0-856c-58b9eba686c8	g.chrX:76875860_76875861delCA	uc004ecp.3	-	20	5504	c.5272_splice	c.e20+1	p.Y1758_splice	ATRX_uc004ecq.3_Splice_Site_p.Y1720_splice|ATRX_uc004eco.3_Splice_Site_p.Y1543_splice	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1						DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	GATATTAACTCACACTCAATTA	0.317			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						9	34	---	---	---	---					
