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
RHBDL2	54933	broad.mit.edu	37	1	39352228	39352228	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr1:39352228G>A	uc001ccu.1	-	8	1088	c.860C>T	c.(859-861)GCT>GTT	p.A287V	RHBDL2_uc010oin.1_3'UTR|RHBDL2_uc010oio.1_Missense_Mutation_p.A367V	NM_017821	NP_060291	Q9NX52	RHBL2_HUMAN	rhomboid protease 2	287	Helical; (Potential).				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity				0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)			TAAGACACAAGCTAAATATGC	0.398000													81	287					0	0	0.014410	0	0
FLG	2312	broad.mit.edu	37	1	152284255	152284255	+	Missense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr1:152284255C>T	uc001ezu.1	-	3	3143	c.3107G>A	c.(3106-3108)CGC>CAC	p.R1036H	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1036	Filaggrin 6.|Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGCTGGTGGCGGGATCCGTG	0.562000									Ichthyosis				173	774					0	0	0.014410	0	0
KIRREL	55243	broad.mit.edu	37	1	158058126	158058126	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr1:158058126G>A	uc001frn.3	+	8	1330	c.926G>A	c.(925-927)CGG>CAG	p.R309Q	KIRREL_uc010pib.1_Missense_Mutation_p.R209Q|KIRREL_uc009wsq.2_Missense_Mutation_p.R145Q|KIRREL_uc001fro.3_Missense_Mutation_p.R107Q	NM_018240	NP_060710	Q96J84	KIRR1_HUMAN	kin of IRRE like precursor	309	Extracellular (Potential).|Ig-like C2-type 4.					integral to membrane				ovary(1)	1	all_hematologic(112;0.0378)					GTTGCTCCCCGGATTGTAGTT	0.547000											OREG0013906	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	120	717					0	0	0.014410	0	0
RYR2	6262	broad.mit.edu	37	1	237947620	237947620	+	Missense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr1:237947620C>T	uc001hyl.1	+	90	12728	c.12608C>T	c.(12607-12609)GCG>GTG	p.A4203V	RYR2_uc010pya.1_Missense_Mutation_p.A618V	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	4203					cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			ATGCAGCTGGCGGCTCAGATC	0.517000													12	369					0	0	0.016723	0	0
FMN2	56776	broad.mit.edu	37	1	240341300	240341300	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr1:240341300G>A	uc010pyd.1	+	3	2087	c.1862G>A	c.(1861-1863)CGA>CAA	p.R621Q	FMN2_uc010pye.1_Missense_Mutation_p.R621Q	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	621					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)			TTTCCTAGGCGAGTTCCATCC	0.448000													54	204					0	0	0.014410	0	0
TUBB8	347688	broad.mit.edu	37	10	93715	93715	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr10:93715G>A	uc001ifi.2	-	4	617	c.617C>T	c.(616-618)GCT>GTT	p.A206V	TUBB8_uc009xhe.2_Missense_Mutation_p.A169V|TUBB8_uc010pzs.1_Missense_Mutation_p.A134V	NM_177987	NP_817124	Q3ZCM7	TBB8_HUMAN	tubulin, beta 8 isoform 1	206					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1		all_cancers(4;0.00131)|all_lung(4;0.000777)|Lung NSC(4;0.0043)|all_epithelial(10;0.0154)|Colorectal(49;0.235)		Epithelial(11;0.00341)|all cancers(11;0.00922)|OV - Ovarian serous cystadenocarcinoma(14;0.0508)|Lung(33;0.132)		GTCATACAGAGCTTCGTTATC	0.537000													208	331					0	0	0.014410	0	0
ITIH5	80760	broad.mit.edu	37	10	7618482	7618482	+	Missense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr10:7618482C>T	uc001ijq.2	-	10	1991	c.1912G>A	c.(1912-1914)GGC>AGC	p.G638S	ITIH5_uc001ijp.2_Missense_Mutation_p.G424S|ITIH5_uc001ijr.1_Missense_Mutation_p.G638S	NM_030569	NP_085046	Q86UX2	ITIH5_HUMAN	inter-alpha trypsin inhibitor heavy chain	638					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|central_nervous_system(2)	4						GCCGACATGCCGTGGGCCTCC	0.687000													34	146					0	0	0.013726	0	0
CELF2	10659	broad.mit.edu	37	10	11207551	11207551	+	Silent	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr10:11207551G>A	uc001iki.3	+	2	248	c.156G>A	c.(154-156)TCG>TCA	p.S52S	CELF2_uc010qbi.1_5'UTR|CELF2_uc010qbj.1_Silent_p.S52S|CELF2_uc001ikk.2_Silent_p.S59S|CELF2_uc001ikl.3_Silent_p.S59S|CELF2_uc010qbk.1_RNA|CELF2_uc010qbl.1_Silent_p.S28S|CELF2_uc010qbm.1_5'UTR|CELF2_uc001iko.3_Silent_p.S28S|CELF2_uc001ikp.3_Silent_p.S28S|CELF2_uc010qbn.1_Silent_p.S36S|CELF2_uc009xiw.1_Silent_p.S28S|CELF2_uc010qbo.1_5'UTR|CELF2_uc010qbp.1_5'UTR	NM_001025077	NP_001020248	O95319	CELF2_HUMAN	CUG triplet repeat, RNA binding protein 2	52	Necessary for RNA-binding, TNNT2 exon 5 and NMDA R1 exon 21 inclusion.|RRM 1.				mRNA processing|regulation of heart contraction	cytoplasm|nucleus	nucleotide binding|protein binding|RNA binding				0						GGTCATGGTCGGAAAAGGAGC	0.532000													79	298					0	0	0.014410	0	0
LOC441666	441666	broad.mit.edu	37	10	42832499	42832499	+	RNA	SNP	C	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr10:42832499C>G	uc010qey.1	-	3		c.1476G>C				NR_024380				Homo sapiens noncoding mRNA sequence.												0						TCTCCCCTATCAATTATGTTT	0.363000													3	31					0	0	0.004672	0	0
ABCC2	1244	broad.mit.edu	37	10	101567935	101567935	+	Silent	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr10:101567935C>T	uc001kqf.2	+	13	1903	c.1764C>T	c.(1762-1764)ATC>ATT	p.I588I		NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),	588	ABC transmembrane type-1 1.|Helical; Name=11; (By similarity).					apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	TCTTCAATATCCTGCGCTTTC	0.473000													13	746					0	0	0.003163	0	0
RPL13AP6	644511	broad.mit.edu	37	10	112696659	112696659	+	Silent	SNP	A	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr10:112696659A>G	uc010qrh.1	-	1	355	c.333T>C	c.(331-333)CCT>CCC	p.P111P	SHOC2_uc001kzl.3_Intron|SHOC2_uc009xxx.2_Intron|SHOC2_uc010qrg.1_Intron	NR_026715				SubName: Full=cDNA FLJ51256, highly similar to 60S ribosomal protein L13a;												0						TCTTGTCGTAAGGCGGTGGGA	0.577000													3	78					0	0	0.001984	0	0
ODF3	113746	broad.mit.edu	37	11	198571	198571	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr11:198571G>A	uc001lob.2	+	5	814	c.520G>A	c.(520-522)GAC>AAC	p.D174N	ODF3_uc010qvk.1_Missense_Mutation_p.D174N|ODF3_uc001loc.2_3'UTR	NM_053280	NP_444510	Q96PU9	ODF3A_HUMAN	outer dense fiber of sperm tails 3	174					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm				ovary(1)	1		all_cancers(49;9.23e-07)|all_epithelial(84;0.000315)|Breast(177;0.00122)|Ovarian(85;0.0202)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;3.95e-27)|Epithelial(43;2.66e-26)|OV - Ovarian serous cystadenocarcinoma(40;5.55e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.105)|LUSC - Lung squamous cell carcinoma(625;0.122)		CGGCTTCAGCGACGACCTACA	0.622000													65	331					0	0	0.014410	0	0
FLJ46111	283102	broad.mit.edu	37	11	9116746	9116746	+	RNA	SNP	C	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr11:9116746C>A	uc010rbv.1	+	1		c.837C>A				NR_027713				Homo sapiens cDNA FLJ46111 fis, clone TESTI2034913, moderately similar to Keratin, type II cytoskeletal 8.												0						AGTCCCAGATCTCGGACACAT	0.547000													61	145					5.47352e-35	6.17526e-35	0.014410	1	0
HPS5	11234	broad.mit.edu	37	11	18313247	18313247	+	Missense_Mutation	SNP	C	T	T	rs150487992	byFrequency	TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr11:18313247C>T	uc001mod.1	-	16	2460	c.2182G>A	c.(2182-2184)GCC>ACC	p.A728T	HPS5_uc001moe.1_Missense_Mutation_p.A614T|HPS5_uc001mof.1_Missense_Mutation_p.A614T	NM_181507	NP_852608	Q9UPZ3	HPS5_HUMAN	Hermansky-Pudlak syndrome 5 isoform a	728						cytosol				ovary(1)|pancreas(1)|skin(1)	3						CTTGCAATGGCGCATGGAGAA	0.408000									Hermansky-Pudlak_syndrome				82	437					0	0	0.014410	0	0
MRGPRX1	259249	broad.mit.edu	37	11	18956097	18956097	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr11:18956097G>A	uc001mpg.2	-	1	453	c.235C>T	c.(235-237)CGC>TGC	p.R79C		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	79	Helical; Name=2; (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						TATATAAGGCGGCCGCTGAGG	0.522000													274	534					0	0	0.014410	0	0
SLC22A10	387775	broad.mit.edu	37	11	63057908	63057908	+	Missense_Mutation	SNP	T	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr11:63057908T>A	uc009yor.2	+	1	479	c.271T>A	c.(271-273)TTT>ATT	p.F91I	SLC22A10_uc010rmo.1_Intron|SLC22A10_uc001nwu.3_RNA|SLC22A10_uc010rmp.1_Missense_Mutation_p.F39I	NM_001039752	NP_001034841	Q63ZE4	S22AA_HUMAN	solute carrier family 22, member 10	91	Extracellular (Potential).					integral to membrane	transmembrane transporter activity			ovary(2)	2						GTGTCGTCGCTTTGTCCATCC	0.493000													13	566					0	0	0.020292	0	0
DLG2	1740	broad.mit.edu	37	11	83810003	83810003	+	Missense_Mutation	SNP	T	C	C			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr11:83810003T>C	uc001paj.2	-	5	700	c.397A>G	c.(397-399)ATA>GTA	p.I133V	DLG2_uc001pai.2_Missense_Mutation_p.I82V|DLG2_uc010rsy.1_Missense_Mutation_p.I100V|DLG2_uc010rsz.1_Missense_Mutation_p.I133V|DLG2_uc010rta.1_Missense_Mutation_p.I133V|DLG2_uc001pak.2_Missense_Mutation_p.I238V|DLG2_uc010rtb.1_Missense_Mutation_p.I100V|DLG2_uc001pal.1_Missense_Mutation_p.I133V|DLG2_uc001pam.1_Missense_Mutation_p.I172V	NM_001364	NP_001355	Q15700	DLG2_HUMAN	chapsyn-110 isoform 2	133	PDZ 1.					cell junction|postsynaptic density|postsynaptic membrane	guanylate kinase activity|protein binding|protein binding			ovary(3)|pancreas(2)|skin(1)	6		all_cancers(6;0.00791)|Acute lymphoblastic leukemia(157;4.44e-05)|all_hematologic(158;0.0036)				CCTCCTGGTATAATCTTCGTA	0.423000													25	126					0	0	0.004656	0	0
HYOU1	10525	broad.mit.edu	37	11	118917491	118917491	+	Silent	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr11:118917491G>A	uc001puu.2	-	23	2812	c.2619C>T	c.(2617-2619)GCC>GCT	p.A873A	HYOU1_uc001put.2_Silent_p.A838A|HYOU1_uc010ryu.1_Silent_p.A831A|HYOU1_uc010ryv.1_Silent_p.A762A|HYOU1_uc001pux.3_Silent_p.A873A	NM_006389	NP_006380	Q9Y4L1	HYOU1_HUMAN	hypoxia up-regulated 1 precursor	873						endoplasmic reticulum lumen	ATP binding|protein binding				0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)|all_hematologic(192;0.207)		BRCA - Breast invasive adenocarcinoma(274;7.78e-05)		TAGCCTGCTCGGCCAGAGTTG	0.557000													55	294					0	0	0.014410	0	0
DCP1B	196513	broad.mit.edu	37	12	2062350	2062350	+	Missense_Mutation	SNP	C	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr12:2062350C>G	uc001qjx.1	-	7	836	c.756G>C	c.(754-756)CAG>CAC	p.Q252H	DCP1B_uc010sdy.1_Missense_Mutation_p.Q150H	NM_152640	NP_689853	Q8IZD4	DCP1B_HUMAN	decapping enzyme Dcp1b	252	Poly-Gln.				exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	cytosol|nucleus	hydrolase activity|protein binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(31;0.00193)			gctgctgctgctgGTGGAGAG	0.458000													6	444					0	0	0.001984	0	0
SOX5	6660	broad.mit.edu	37	12	23687306	23687306	+	Silent	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr12:23687306G>A	uc001rfw.2	-	15	2241	c.2139C>T	c.(2137-2139)TAC>TAT	p.Y713Y	SOX5_uc001rfx.2_Silent_p.Y700Y|SOX5_uc001rfy.2_Silent_p.Y592Y|SOX5_uc001rfv.2_Silent_p.Y327Y|SOX5_uc010siv.1_Silent_p.Y700Y	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	713					transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						CTTTCACACCGTAAGTGCTCT	0.542000													9	373					0	0	0.008291	0	0
SOX5	6660	broad.mit.edu	37	12	23818424	23818424	+	Missense_Mutation	SNP	C	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr12:23818424C>A	uc001rfw.2	-	7	987	c.885G>T	c.(883-885)CAG>CAT	p.Q295H	SOX5_uc001rfx.2_Missense_Mutation_p.Q282H|SOX5_uc001rfy.2_Missense_Mutation_p.Q282H|SOX5_uc010siv.1_Missense_Mutation_p.Q282H|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Missense_Mutation_p.Q247H	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	295				Q -> H (in Ref. 2; BAB85048).	transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						GGAATCCTTGCTGGGCAGCTG	0.498000													10	674					4.68919e-08	4.99172e-08	0.008291	1	0
Unknown	0	broad.mit.edu	37	12	24737103	24737103	+	Splice_Site	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr12:24737103G>A	uc001rgb.1	-	1		c.1_splice	c.e1-1							Homo sapiens cDNA FLJ32894 fis, clone TESTI2004994.																		AGAAGAGACTGATCGCCAGTC	0.527000													6	481					0	0	0.001984	0	0
KRAS	3845	broad.mit.edu	37	12	25398284	25398284	+	Missense_Mutation	SNP	C	T	T	rs121913529		TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr12:25398284C>T	uc001rgp.1	-	2	216	c.35G>A	c.(34-36)GGT>GAT	p.G12D	KRAS_uc001rgq.1_Missense_Mutation_p.G12D|KRAS_uc001rgr.2_RNA	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	12	GTP.		G -> D (in pancreatic carcinoma, GASC and lung carcinoma; somatic mutation).|G -> R (in lung cancer and bladder cancer; somatic mutation).|G -> S (in lung carcinoma and GASC; somatic mutation).|G -> A (in a colorectal cancer sample; somatic mutation).|G -> C (in lung carcinoma; somatic mutation).|G -> V (in lung carcinoma, pancreatic carcinoma, colon cancer and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G12D(7175)|p.G12V(4780)|p.G12C(2482)|p.G12A(1180)|p.G12S(1119)|p.G12R(691)|p.G12?(50)|p.G12F(34)|p.G12N(6)|p.G12G(6)|p.G12L(5)|p.G12I(4)|p.G12_G13insG(4)|p.G12E(3)|p.G12W(3)|p.A11_G12insGA(2)|p.G12Y(2)|p.G12fs*3(1)		large_intestine(12391)|pancreas(3285)|lung(2847)|biliary_tract(521)|ovary(443)|endometrium(339)|haematopoietic_and_lymphoid_tissue(318)|stomach(203)|thyroid(149)|prostate(85)|soft_tissue(77)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|liver(31)|breast(28)|testis(17)|oesophagus(15)|central_nervous_system(9)|peritoneum(6)|salivary_gland(6)|kidney(5)|gastrointestinal_tract_(site_indeterminate)(5)|thymus(5)|eye(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	21052	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			GCCTACGCCACCAGCTCCAAC	0.348000	G12D(HPAC_PANCREAS)|G12V(SW403_LARGE_INTESTINE)|G12D(HPAFII_PANCREAS)|G12D(PANC0403_PANCREAS)|G12D(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12A(KMS28BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(NCIH441_LUNG)|G12D(SU8686_PANCREAS)|G12D(SUIT2_PANCREAS)|G12D(PK1_PANCREAS)|G12V(KP3_PANCREAS)|G12D(PANC0813_PANCREAS)|G12A(SW1116_LARGE_INTESTINE)|G12D(LS180_LARGE_INTESTINE)|G12V(NCIH727_LUNG)|G12V(PATU8988S_PANCREAS)|G12V(CAPAN2_PANCREAS)|G12D(KP4_PANCREAS)|G12D(LS513_LARGE_INTESTINE)|G12D(SNUC2A_LARGE_INTESTINE)|G12V(SW480_LARGE_INTESTINE)|G12V(COLO668_LUNG)|G12D(COLO678_LARGE_INTESTINE)|G12V(RERFLCAD2_LUNG)|G12D(PANC0203_PANCREAS)|G12V(CFPAC1_PANCREAS)|G12V(SW900_LUNG)|G12V(LCLC97TM1_LUNG)|G12V(SW620_LARGE_INTESTINE)|G12A(MM1S_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(SH10TC_STOMACH)|G12V(A498_KIDNEY)|G12D(PK59_PANCREAS)|G12D(HEC1A_ENDOMETRIUM)|G12D(PANC0504_PANCREAS)|G12V(SNGM_ENDOMETRIUM)|G12A(RERFLCAD1_LUNG)|G12A(KPNSI9S_AUTONOMIC_GANGLIA)|G12D(ASPC1_PANCREAS)|G12A(RPMI8226_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(RCM1_LARGE_INTESTINE)|G12V(CORL23_LUNG)|G12D(SW1990_PANCREAS)|G12D(HEYA8_OVARY)|G12A(NCIH1573_LUNG)|G12A(NCIH2009_LUNG)|G12V(HUPT4_PANCREAS)|G12D(KARPAS620_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12D(HEC50B_ENDOMETRIUM)|G12V(YAPC_PANCREAS)|G12V(NCIH2444_LUNG)|G12V(HCC56_LARGE_INTESTINE)|G12D(MCAS_OVARY)|G12V(DANG_PANCREAS)|G12V(SHP77_LUNG)|G12D(AGS_STOMACH)|G12D(SKLU1_LUNG)|G12V(QGP1_PANCREAS)|G12D(L33_PANCREAS)|G12V(PANC0327_PANCREAS)|G12D(PANC1_PANCREAS)|G12V(RKN_OVARY)|G12V(PATU8902_PANCREAS)	119	Mis		pancreatic|colorectal|lung|thyroid|AML|others				Cardiofaciocutaneous_syndrome|Noonan_syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			42	84					0	0	0.009718	0	0
ERBB3	2065	broad.mit.edu	37	12	56488206	56488206	+	Silent	SNP	A	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr12:56488206A>G	uc001sjh.2	+	15	1918	c.1725A>G	c.(1723-1725)CAA>CAG	p.Q575Q	ERBB3_uc009zoj.2_Intron|ERBB3_uc010sqb.1_Intron|ERBB3_uc010sqc.1_Silent_p.Q516Q|ERBB3_uc009zok.2_Silent_p.Q17Q|ERBB3_uc001sjk.2_5'Flank	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	575	Extracellular (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			CTTGTGCTCAATGTGCCCATT	0.522000													273	430					0	0	0.014410	0	0
HSPB8	26353	broad.mit.edu	37	12	119617420	119617420	+	Missense_Mutation	SNP	T	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr12:119617420T>A	uc001txb.2	+	1	826	c.303T>A	c.(301-303)AAT>AAA	p.N101K	HSPB8_uc001txc.2_Missense_Mutation_p.N101K	NM_014365	NP_055180	Q9UJY1	HSPB8_HUMAN	heat shock 22kDa protein 8	101					cell death|response to heat	cytoplasm|nucleus	identical protein binding|protein serine/threonine kinase activity			central_nervous_system(1)|skin(1)	2	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGTGTGTGAATGTGCACAGCT	0.627000													5	132					0	0	0.001168	0	0
TUBA3C	7278	broad.mit.edu	37	13	19752452	19752452	+	Silent	SNP	G	A	A	rs114178008		TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr13:19752452G>A	uc009zzj.2	-	3	358	c.309C>T	c.(307-309)TAC>TAT	p.Y103Y		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	103					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)|skin(2)	5		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)		GGCCTCTGGCGTAATTATTGG	0.527000													17	677					0	0	0.007413	0	0
WDFY2	115825	broad.mit.edu	37	13	52301830	52301830	+	Missense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr13:52301830C>T	uc001vfp.2	+	6	842	c.502C>T	c.(502-504)CGG>TGG	p.R168W	WDFY2_uc010ads.1_Missense_Mutation_p.R168W|WDFY2_uc010adt.1_RNA	NM_052950	NP_443182	Q96P53	WDFY2_HUMAN	WD repeat and FYVE domain containing 2	168	WD 4.						metal ion binding				0		Breast(56;0.000208)|Lung NSC(96;0.000517)|Prostate(109;0.0041)|Hepatocellular(98;0.0652)|Myeloproliferative disorder(33;0.164)|all_neural(104;0.191)		GBM - Glioblastoma multiforme(99;9e-08)		TGTTGAAACCCGGCATGTGTT	0.368000													62	363					0	0	0.014410	0	0
CLEC14A	161198	broad.mit.edu	37	14	38724011	38724011	+	Missense_Mutation	SNP	G	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr14:38724011G>T	uc001wum.1	-	1	1564	c.1217C>A	c.(1216-1218)GCA>GAA	p.A406E		NM_175060	NP_778230	Q86T13	CLC14_HUMAN	C-type lectin domain family 14, member A	406	Helical; (Potential).					integral to membrane	sugar binding			ovary(3)|skin(1)	4	Hepatocellular(127;0.213)|Esophageal squamous(585;0.22)		Lung(238;3.93e-06)|LUAD - Lung adenocarcinoma(48;2.62e-05)|Epithelial(34;0.187)	GBM - Glioblastoma multiforme(112;0.00439)		CACTACTACTGCTGTGCTCAC	0.512000													9	212					0.000442599	0.000452892	0.006214	1	0
KCNH5	27133	broad.mit.edu	37	14	63174339	63174339	+	Missense_Mutation	SNP	A	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr14:63174339A>G	uc001xfx.2	-	11	2905	c.2854T>C	c.(2854-2856)TCT>CCT	p.S952P	KCNH5_uc001xfy.2_3'UTR	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	952	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		GATTTGGGAGATGAGGCCTGG	0.468000													23	788					0	0	0.015359	0	0
ADCK1	57143	broad.mit.edu	37	14	78365553	78365553	+	Missense_Mutation	SNP	G	C	C			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr14:78365553G>C	uc001xui.2	+	6	792	c.693G>C	c.(691-693)AGG>AGC	p.R231S	ADCK1_uc010tvo.1_RNA|ADCK1_uc001xuj.2_Missense_Mutation_p.R163S|ADCK1_uc001xuk.1_Missense_Mutation_p.R105S	NM_020421	NP_065154	Q86TW2	ADCK1_HUMAN	aarF domain containing kinase 1 isoform a	238	Protein kinase.					extracellular region	ATP binding|protein serine/threonine kinase activity			stomach(2)|ovary(1)	3			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0376)		ATGAAGGGAGGAATGCTGAGA	0.502000													7	580					0	0	0.003080	0	0
MYO9A	4649	broad.mit.edu	37	15	72154877	72154877	+	Silent	SNP	A	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr15:72154877A>G	uc002atl.3	-	33	6528	c.6055T>C	c.(6055-6057)TTG>CTG	p.L2019L	MYO9A_uc002atk.2_Silent_p.L814L	NM_006901	NP_008832	B2RTY4	MYO9A_HUMAN	myosin IXA	2019	Tail.|Phorbol-ester/DAG-type 1.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|visual perception	cytosol|integral to membrane|unconventional myosin complex	actin binding|ATP binding|GTPase activator activity|metal ion binding|motor activity			ovary(1)|pancreas(1)|skin(1)	3						ATCCATATCAAAGAAGAACAG	0.363000													67	195					0	0	0.014410	0	0
Unknown	0	broad.mit.edu	37	15	102292829	102292829	+	Missense_Mutation	SNP	C	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr15:102292829C>G	uc010usj.1	+	4	476	c.417C>G	c.(415-417)CAC>CAG	p.H139Q	uc002bxo.2_5'Flank|uc002bxp.3_5'Flank|uc002bxt.2_5'Flank|uc002bxz.3_5'Flank|uc002byd.2_5'Flank|uc002bye.2_5'Flank|uc002byf.1_5'Flank|uc002byg.2_5'Flank|uc002byi.2_5'Flank|uc002byk.2_5'Flank|uc002bym.2_5'Flank|uc002byn.2_5'Flank|uc010usm.1_5'Flank|uc002byr.2_5'Flank					RecName: Full=Uncharacterized protein C15orf51.; Flags: Fragment;																		CGAGAAGACACTCGTGGAGGC	0.597000													3	83					0	0	0.014758	0	0
CACNA1H	8912	broad.mit.edu	37	16	1270464	1270464	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr16:1270464G>A	uc002cks.2	+	35	6780	c.6532G>A	c.(6532-6534)GCT>ACT	p.A2178T	CACNA1H_uc002ckt.2_Missense_Mutation_p.A2172T|CACNA1H_uc002cku.2_Missense_Mutation_p.A873T|CACNA1H_uc010brj.2_Missense_Mutation_p.A889T|CACNA1H_uc002ckv.2_Missense_Mutation_p.A867T	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	2178	Cytoplasmic (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	GGCCGAGCCCGCTCTGGGTGC	0.746000													83	155					0	0	0.014410	0	0
Unknown	0	broad.mit.edu	37	16	21902174	21902174	+	RNA	SNP	A	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr16:21902174A>G	uc002djs.3	-	2		c.71T>C			uc010vbo.1_RNA|uc002dju.1_5'Flank					Homo sapiens cDNA FLJ45371 fis, clone BRHIP3017855, highly  similar to Homo sapiens nuclear pore complex interacting protein (NPIP).																		TACAACAGCTACTTCCAAAGC	0.328000													3	58					0	0	0.009096	0	0
KCTD13	253980	broad.mit.edu	37	16	29922360	29922360	+	Missense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr16:29922360C>T	uc002duv.2	-	5	883	c.692G>A	c.(691-693)CGC>CAC	p.R231H	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|ASPHD1_uc002duu.3_Intron|ASPHD1_uc010bzi.2_Intron|KCTD13_uc010vee.1_RNA	NM_178863	NP_849194	Q8WZ19	BACD1_HUMAN	potassium channel tetramerisation domain	231					cell migration|DNA replication|negative regulation of Rho protein signal transduction|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|nucleus|voltage-gated potassium channel complex	GTP-Rho binding|voltage-gated potassium channel activity				0						GGCGATTTTGCGGCCCTGCCC	0.607000													5	261					0	0	0.014758	0	0
Unknown	0	broad.mit.edu	37	16	31973444	31973444	+	RNA	SNP	C	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr16:31973444C>A	uc002ect.2	+	1		c.36C>A								Homo sapiens IGH mRNA for immunoglobulin heavy chain VHDJ region, partial cds, clone:H186.																		GAGGCTTGGTCCAGCCTGGGG	0.577000													8	440					0.00621372	0.00630931	0.006214	1	0
CES1	1066	broad.mit.edu	37	16	55855414	55855414	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr16:55855414G>A	uc002eim.2	-	5	664	c.556C>T	c.(556-558)CGG>TGG	p.R186W	CES1_uc002eil.2_Missense_Mutation_p.R187W|CES1_uc002ein.2_Missense_Mutation_p.R186W	NM_001025194	NP_001020365	P23141	EST1_HUMAN	carboxylesterase 1 isoform b precursor	186				R -> G (in Ref. 18; CAA37147).	response to toxin	endoplasmic reticulum lumen	carboxylesterase activity|methyl indole-3-acetate esterase activity|methyl jasmonate esterase activity|methyl salicylate esterase activity				0				all cancers(182;0.13)|Epithelial(162;0.137)	Aminoglutethimide(DB00357)|Bezafibrate(DB01393)|Cholestyramine(DB01432)|Moexipril(DB00691)	CAGTTCCCCCGGCTGTGTTCA	0.602000													21	190					0	0	0.012319	0	0
GNAO1	2775	broad.mit.edu	37	16	56309960	56309960	+	Silent	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr16:56309960C>T	uc002eit.3	+	3	1176	c.279C>T	c.(277-279)ATC>ATT	p.I93I	GNAO1_uc002eiu.3_Silent_p.I93I	NM_138736	NP_620073	P09471	GNAO_HUMAN	guanine nucleotide binding protein, alpha	93					dopamine receptor signaling pathway|G-protein signaling, coupled to cAMP nucleotide second messenger|muscle contraction	heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|metabotropic serotonin receptor binding|signal transducer activity			lung(1)|breast(1)	2		all_neural(199;0.159)				CTTTGGGCATCGAATATGGTG	0.522000													88	257					0	0	0.014410	0	0
FAM65A	79567	broad.mit.edu	37	16	67573779	67573779	+	Nonsense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr16:67573779C>T	uc010vjp.1	+	6	547	c.451C>T	c.(451-453)CGA>TGA	p.R151*	FAM65A_uc010cei.1_Translation_Start_Site|FAM65A_uc002eth.2_Nonsense_Mutation_p.R131*|FAM65A_uc010cej.2_Nonsense_Mutation_p.R134*|FAM65A_uc002eti.1_Nonsense_Mutation_p.R94*|FAM65A_uc010vjq.1_Nonsense_Mutation_p.R145*|FAM65A_uc002etj.1_Nonsense_Mutation_p.R130*|FAM65A_uc002etk.2_Nonsense_Mutation_p.R130*	NM_024519	NP_078795	Q6ZS17	FA65A_HUMAN	hypothetical protein LOC79567	135						cytoplasm	binding			ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(13;3.76e-06)|all_hematologic(13;0.000303)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0474)|Epithelial(162;0.117)		CTTCCTGCGACGACTGGAGTT	0.617000													10	754					0	0	0.010729	0	0
Unknown	0	broad.mit.edu	37	16	70268080	70268080	+	RNA	SNP	T	C	C	rs149244259	by1000genomes	TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr16:70268080T>C	uc010cfp.1	-	3		c.335A>G								Homo sapiens cDNA, FLJ98908.																		GTCTTACTGTTGGCTAAAAGG	0.373000													4	57					0	0	0.009096	0	0
FUK	197258	broad.mit.edu	37	16	70508870	70508870	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr16:70508870G>A	uc002eyy.2	+	18	2391	c.2333G>A	c.(2332-2334)CGG>CAG	p.R778Q	FUK_uc010cft.2_Missense_Mutation_p.R810Q|FUK_uc002eyz.2_Missense_Mutation_p.R269Q	NM_145059	NP_659496	Q8N0W3	FUK_HUMAN	fucokinase	778						cytoplasm	ATP binding|fucokinase activity			ovary(1)	1		Ovarian(137;0.0694)				ATAGTGTGCCGGTGCCTGGCT	0.706000													10	80					0	0	0.008291	0	0
MTSS1L	92154	broad.mit.edu	37	16	70698201	70698201	+	Silent	SNP	C	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr16:70698201C>A	uc002ezj.2	-	15	1883	c.1623G>T	c.(1621-1623)GGG>GGT	p.G541G		NM_138383	NP_612392	Q765P7	MTSSL_HUMAN	metastasis suppressor 1-like	541					filopodium assembly|signal transduction		actin binding|cytoskeletal adaptor activity|SH3 domain binding			central_nervous_system(1)	1						CGGTGGGCAGCCCAGCAGTGG	0.711000													12	97					0.000219431	0.00022807	0.020292	1	0
FOXF1	2294	broad.mit.edu	37	16	86545100	86545100	+	Silent	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr16:86545100C>T	uc002fjl.2	+	1	968	c.925C>T	c.(925-927)CTG>TTG	p.L309L	uc002fjk.1_5'Flank	NM_001451	NP_001442	Q12946	FOXF1_HUMAN	forkhead box F1	309					branching involved in open tracheal system development|cardiac left ventricle morphogenesis|embryonic ectodermal digestive tract morphogenesis|endocardial cushion development|in utero embryonic development|lung vasculature development|midgut development|pancreas development|positive regulation of transcription, DNA-dependent|regulation of sequence-specific DNA binding transcription factor activity|ureter development|venous blood vessel 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 factor binding				0						CACGCACTCCCTGGAGCAGCC	0.687000													4	45					0	0	0.009096	0	0
ZNF276	92822	broad.mit.edu	37	16	89804289	89804289	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr16:89804289G>A	uc002fos.3	+	10	1647	c.1550G>A	c.(1549-1551)CGA>CAA	p.R517Q	ZNF276_uc010ciq.2_Missense_Mutation_p.R303Q|ZNF276_uc002fop.2_Missense_Mutation_p.R425Q|ZNF276_uc002foq.3_Missense_Mutation_p.R442Q|ZNF276_uc010cir.2_RNA|ZNF276_uc002for.3_Missense_Mutation_p.R303Q|ZNF276_uc010cis.2_Missense_Mutation_p.R276Q|ZNF276_uc002fot.3_RNA|ZNF276_uc010vpm.1_Missense_Mutation_p.R355Q|ZNF276_uc010cit.1_Missense_Mutation_p.R276Q|FANCA_uc002fou.1_3'UTR|FANCA_uc010vpn.1_3'UTR	NM_001113525	NP_001106997	Q8N554	ZN276_HUMAN	zinc finger protein 276 isoform a	517	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0278)		CACCAAATGCGACATTCGGGA	0.567000													67	390					0	0	0.014410	0	0
Unknown	0	broad.mit.edu	37	17	21731144	21731144	+	Missense_Mutation	SNP	T	G	G	rs149119138	by1000genomes	TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr17:21731144T>G	uc002gyy.3	+	2	571	c.446T>G	c.(445-447)CTG>CGG	p.L149R						SubName: Full=cDNA FLJ51326, highly similar to Homo sapiens ubiquitin B (UBB), mRNA;																		GTCCTGCGTCTGAGAGGTGGT	0.542000													11	361					0	0	0.010729	0	0
MLLT6	4302	broad.mit.edu	37	17	36872842	36872842	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr17:36872842G>A	uc002hqi.3	+	10	1272	c.1259G>A	c.(1258-1260)CGG>CAG	p.R420Q	MLLT6_uc002hqj.2_Intron|MLLT6_uc002hqk.3_5'Flank	NM_005937	NP_005928	P55198	AF17_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	420					regulation of transcription, DNA-dependent	nucleus	protein binding|zinc ion binding			breast(3)|prostate(1)|lung(1)|skin(1)	6	Breast(7;4.43e-21)					GGCCGGGCCCGGGCGCCCTCC	0.662000			T	MLL	AL								10	206					0	0	0.008291	0	0
C1QL1	10882	broad.mit.edu	37	17	43045120	43045120	+	Silent	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr17:43045120C>T	uc002ihv.2	-	1	525	c.297G>A	c.(295-297)AAG>AAA	p.K99K		NM_006688	NP_006679	O75973	C1QRF_HUMAN	complement component 1, q subcomponent-like 1	99	Collagen-like.				locomotory behavior	collagen					0		Prostate(33;0.155)				CTGGCTCACCCTTCTCCCCCG	0.597000													4	29					0	0	0.009096	0	0
CHAD	1101	broad.mit.edu	37	17	48545598	48545598	+	Missense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr17:48545598C>T	uc010dbr.2	-	1	630	c.577G>A	c.(577-579)GAC>AAC	p.D193N	ACSF2_uc002iqu.2_Intron|ACSF2_uc010wml.1_Intron|ACSF2_uc010wmm.1_Intron|ACSF2_uc010wmn.1_Intron|ACSF2_uc010wmo.1_Intron|CHAD_uc010dbs.2_Missense_Mutation_p.D193N|ACSF2_uc010dbt.1_5'Flank	NM_001267	NP_001258	O15335	CHAD_HUMAN	chondroadherin precursor	193	LRR 5.				regulation of cell growth	proteinaceous extracellular matrix	extracellular matrix structural constituent			ovary(2)|central_nervous_system(1)	3	Breast(11;1.93e-18)		BRCA - Breast invasive adenocarcinoma(22;1.55e-09)			TTCTCCACGTCGTCCAGGGCC	0.652000													156	253					0	0	0.014410	0	0
ASXL3	80816	broad.mit.edu	37	18	31325508	31325508	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr18:31325508G>A	uc010dmg.1	+	12	5751	c.5696G>A	c.(5695-5697)CGG>CAG	p.R1899Q	ASXL3_uc002kxq.2_Missense_Mutation_p.R1606Q	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1899					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3						CAGCAAAAGCGGCTGCTCCCC	0.498000													164	338					0	0	0.014410	0	0
SMAD4	4089	broad.mit.edu	37	18	48604674	48604674	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr18:48604674G>A	uc010xdp.1	+	12	2034	c.1496G>A	c.(1495-1497)TGC>TAC	p.C499Y	SMAD4_uc002lfb.3_Missense_Mutation_p.C344Y	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4	499	MH2.				BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity	p.0?(35)|p.C499Y(2)|p.?(2)		pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		CGTCGCTTATGCATACTCAGG	0.478000									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				83	147					0	0	0.014410	0	0
DENND1C	79958	broad.mit.edu	37	19	6467715	6467715	+	Missense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr19:6467715C>T	uc002mfe.2	-	23	2298	c.2206G>A	c.(2206-2208)GAT>AAT	p.D736N	DENND1C_uc002mfb.2_Missense_Mutation_p.D286N|DENND1C_uc002mfc.2_Missense_Mutation_p.D286N|DENND1C_uc002mfd.2_Missense_Mutation_p.D286N|DENND1C_uc010xje.1_Missense_Mutation_p.D692N	NM_024898	NP_079174	Q8IV53	DEN1C_HUMAN	DENN/MADD domain containing 1C	736						clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity			large_intestine(1)	1						GAGGAAGGATCAAGGGGCTGG	0.637000													5	141					0	0	0.001168	0	0
MYO1F	4542	broad.mit.edu	37	19	8616746	8616746	+	Missense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr19:8616746C>T	uc002mkg.2	-	8	763	c.649G>A	c.(649-651)GCC>ACC	p.A217T	MYO1F_uc002mkh.2_Missense_Mutation_p.A217T|MYO1F_uc010xkf.1_3'UTR	NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	217	Myosin head-like.					unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						TCCTGGGAGGCCCCTTCCAGC	0.607000													6	415					0	0	0.001168	0	0
KCNA7	3743	broad.mit.edu	37	19	49573858	49573858	+	Missense_Mutation	SNP	C	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr19:49573858C>G	uc002pmg.2	-	2	1189	c.833G>C	c.(832-834)AGA>ACA	p.R278T		NM_031886	NP_114092	Q96RP8	KCNA7_HUMAN	potassium voltage-gated channel, shaker-related	278	Helical; Voltage-sensor; Name=Segment S4; (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(1)	1		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_epithelial(76;3.83e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		all cancers(93;0.000397)|OV - Ovarian serous cystadenocarcinoma(262;0.000519)|GBM - Glioblastoma multiforme(486;0.00541)|Epithelial(262;0.0441)		TCGGATGACTCTCAGGATGGC	0.607000													11	361					0	0	0.016723	0	0
FPR3	2359	broad.mit.edu	37	19	52327801	52327801	+	Nonsense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr19:52327801G>A	uc002pxt.1	+	2	984	c.800G>A	c.(799-801)TGG>TAG	p.W267*		NM_002030	NP_002021	P25089	FPR3_HUMAN	formyl peptide receptor-like 2	267	Extracellular (Potential).				cellular component movement|chemotaxis	integral to membrane|plasma membrane	N-formyl peptide receptor activity			lung(4)|breast(1)|skin(1)	6						ATGGCAGTCTGGCTCAAAGAG	0.423000													51	437					0	0	0.014410	0	0
VSTM1	284415	broad.mit.edu	37	19	54567035	54567035	+	Translation_Start_Site	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr19:54567035G>A	uc002qcw.3	-	1	173	c.-3C>T	c.(-5--1)GACGC>GATGC		VSTM1_uc010erb.2_RNA|VSTM1_uc002qcx.3_Translation_Start_Site	NM_198481	NP_940883	Q6UX27	VSTM1_HUMAN	V-set and transmembrane domain containing 1							integral to membrane					0	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.165)		CGGTCATAGCGTCCCTTCTGC	0.627000													92	532					0	0	0.014410	0	0
LILRA6	79168	broad.mit.edu	37	19	54742926	54742926	+	Missense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr19:54742926C>T	uc002qeu.1	-	8	1473	c.1349G>A	c.(1348-1350)CGC>CAC	p.R450H	LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Intron|LILRA6_uc002qek.1_Intron|LILRB3_uc010erh.1_Intron|LILRB3_uc002qej.1_Intron|LILRA6_uc002qel.1_Intron|LILRA6_uc002qem.1_Intron|LILRB3_uc002qen.1_Intron|LILRB3_uc002qeo.1_Intron|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Intron|LILRB3_uc002qer.1_Intron|LILRB3_uc002qes.1_Intron|LILRA6_uc010yep.1_Intron|LILRA6_uc010yeq.1_Intron|LILRA6_uc002qet.3_RNA|LILRA6_uc002qev.1_Missense_Mutation_p.R294H	NM_024318	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor,	450	Helical; (Potential).					integral to membrane	receptor activity			skin(2)	2	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CATGCCCATGCGGATGAGATT	0.577000													34	277					0	0	0.012213	0	0
ZNF667	63934	broad.mit.edu	37	19	56969532	56969532	+	Missense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr19:56969532C>T	uc002qnd.2	-	4	407	c.245G>A	c.(244-246)CGG>CAG	p.R82Q	ZNF667_uc010etl.2_5'UTR|ZNF667_uc002qne.2_Missense_Mutation_p.R82Q|ZNF667_uc010etm.2_5'UTR	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	82	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0615)		ACCAGGAGCCCGGCGTCTTCT	0.338000													41	348					0	0	0.010771	0	0
PEG3	5178	broad.mit.edu	37	19	57325709	57325709	+	Silent	SNP	T	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr19:57325709T>A	uc002qnu.2	-	7	4452	c.4101A>T	c.(4099-4101)GCA>GCT	p.A1367A	ZIM2_uc010ygq.1_Intron|ZIM2_uc010ygr.1_Intron|ZIM2_uc002qnr.2_Intron|ZIM2_uc002qnq.2_Intron|ZIM2_uc010etp.2_Intron|ZIM2_uc010ygs.1_Intron|PEG3_uc002qnt.2_Silent_p.A1338A|PEG3_uc002qnv.2_Silent_p.A1367A|PEG3_uc002qnw.2_Silent_p.A1243A|PEG3_uc002qnx.2_Silent_p.A1241A|PEG3_uc010etr.2_Silent_p.A1367A	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	1367	Glu-rich.				apoptosis|viral reproduction	cytoplasm|nucleus	nucleic acid binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0269)		ctgctgctgctgcagctgctg	0.393000													42	302					0	0	0.006999	0	0
NBAS	51594	broad.mit.edu	37	2	15506710	15506710	+	Missense_Mutation	SNP	C	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr2:15506710C>A	uc002rcc.1	-	32	3837	c.3811G>T	c.(3811-3813)GTT>TTT	p.V1271F	NBAS_uc010exl.1_Missense_Mutation_p.V343F|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1271										ovary(2)|liver(1)|skin(1)	4						TTACCTGCAACCCTCAGCAGC	0.453000													8	382					5.18039e-06	5.47049e-06	0.003080	1	0
REG1B	5968	broad.mit.edu	37	2	79314680	79314680	+	Missense_Mutation	SNP	C	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr2:79314680C>A	uc002sny.2	-	2	171	c.59G>T	c.(58-60)AGC>ATC	p.S20I	REG1B_uc010ffv.1_Missense_Mutation_p.S20I|REG1B_uc010ffw.2_Missense_Mutation_p.S20I	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	20					cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						CTCACCTTGGCTCAGAGACAG	0.473000													36	199					9.45814e-24	1.04914e-23	0.021022	1	0
PARD3B	117583	broad.mit.edu	37	2	206041224	206041224	+	Missense_Mutation	SNP	C	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr2:206041224C>A	uc002var.1	+	13	2054	c.1847C>A	c.(1846-1848)GCT>GAT	p.A616D	PARD3B_uc010fub.1_Missense_Mutation_p.A616D|PARD3B_uc002vao.1_Missense_Mutation_p.A616D|PARD3B_uc002vap.1_Missense_Mutation_p.A554D|PARD3B_uc002vaq.1_Missense_Mutation_p.A616D	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	616					cell cycle|cell division	endomembrane system|tight junction				skin(2)|ovary(1)|breast(1)	4		all_cancers(1;2.88e-06)|all_epithelial(1;3.23e-06)		Epithelial(149;0.0739)		TGTCAAAATGCTGTAACCACC	0.383000													55	185					1.78197e-24	1.99338e-24	0.014410	1	0
ZDBF2	57683	broad.mit.edu	37	2	207175567	207175567	+	Silent	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr2:207175567G>A	uc002vbp.2	+	5	6565	c.6315G>A	c.(6313-6315)GCG>GCA	p.A2105A		NM_020923	NP_065974	Q9HCK1	ZDBF2_HUMAN	zinc finger, DBF-type containing 2	2105							nucleic acid binding|zinc ion binding			ovary(3)	3						CTGCTTCAGCGCCTTTAATGG	0.443000													73	354					0	0	0.014410	0	0
PAX3	5077	broad.mit.edu	37	2	223065932	223065932	+	Silent	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr2:223065932G>A	uc002vmt.1	-	10	1845	c.1479C>T	c.(1477-1479)TTC>TTT	p.F493F	PAX3_uc002vmy.1_3'UTR|PAX3_uc002vmv.1_3'UTR|PAX3_uc002vmw.1_3'UTR|PAX3_uc002vmx.1_3'UTR	NM_181459	NP_852124	P23760	PAX3_HUMAN	paired box 3 isoform PAX3e	Error:Variant_position_missing_in_P23760_after_alignment					apoptosis|organ morphogenesis|positive regulation of transcription from RNA polymerase II promoter|sensory perception of sound|transcription from RNA polymerase II promoter	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		PAX3/FOXO1(749)|PAX3/NCOA1(8)|PAX3/NCOA2(4)	soft_tissue(761)|ovary(4)|skin(1)	766		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;1.85e-07)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGCTTTTGTCGAACGTGTTCA	0.418000			T	FOXO1A|NCOA1	alveolar rhabdomyosarcoma		Waardenburg syndrome; craniofacial-deafness-hand syndrome						92	142					0	0	0.014410	0	0
COL6A3	1293	broad.mit.edu	37	2	238256455	238256455	+	Nonsense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr2:238256455G>A	uc002vwl.2	-	31	7309	c.7024C>T	c.(7024-7026)CGA>TGA	p.R2342*	COL6A3_uc002vwo.2_Nonsense_Mutation_p.R2136*|COL6A3_uc010znj.1_Nonsense_Mutation_p.R1735*|COL6A3_uc002vwp.1_Nonsense_Mutation_p.R163*	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2342	Collagen-like 5.|Triple-helical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		CTTACCCTTCGGCCTCTGATG	0.502000													25	91					0	0	0.005443	0	0
OR6B2	389090	broad.mit.edu	37	2	240969697	240969697	+	Missense_Mutation	SNP	C	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr2:240969697C>A	uc002vyr.2	-	2	196	c.150G>T	c.(148-150)TGG>TGT	p.W50C	OR6B2_uc010zoc.1_Missense_Mutation_p.W50C	NM_001005853	NP_001005853	Q6IFH4	OR6B2_HUMAN	olfactory receptor, family 6, subfamily B,	50	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		all_epithelial(40;1.64e-11)|Breast(86;0.000327)|Renal(207;0.00571)|Ovarian(221;0.104)|all_hematologic(139;0.182)|all_lung(227;0.229)|Melanoma(123;0.238)		Epithelial(121;3.4e-29)|all cancers(36;2.08e-27)|OV - Ovarian serous cystadenocarcinoma(60;4.63e-14)|Kidney(56;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(57;3.23e-08)|BRCA - Breast invasive adenocarcinoma(100;1.56e-05)|Lung(119;0.00344)|LUSC - Lung squamous cell carcinoma(224;0.0148)		AGGTGCTGCTCCAGACGATGA	0.577000													121	427					6.7584e-44	7.69059e-44	0.014410	1	0
C2orf85	285093	broad.mit.edu	37	2	242815145	242815145	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr2:242815145G>A	uc010fzu.1	+	2	1461	c.1438G>A	c.(1438-1440)GAT>AAT	p.D480N		NM_173821	NP_776182	Q14D33	CB085_HUMAN	hypothetical protein LOC285093	480						integral to membrane				ovary(1)	1						CGCAGTCTTCGATGTCATAAA	0.632000													79	316					0	0	0.014410	0	0
CASS4	57091	broad.mit.edu	37	20	55033547	55033547	+	Missense_Mutation	SNP	T	C	C			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr20:55033547T>C	uc002xxp.2	+	7	2330	c.2105T>C	c.(2104-2106)ATC>ACC	p.I702T	CASS4_uc002xxr.2_Missense_Mutation_p.I702T|CASS4_uc010zze.1_Missense_Mutation_p.I648T|CASS4_uc010gio.2_Missense_Mutation_p.I265T	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	702					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						CCCGCGGAGATCATCACTCAG	0.592000													5	327					0	0	0.001168	0	0
OGG1	4968	broad.mit.edu	37	3	9798279	9798279	+	Missense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr3:9798279C>T	uc003bsi.2	+	5	1215	c.872C>T	c.(871-873)CCG>CTG	p.P291L	OGG1_uc003bsh.2_Missense_Mutation_p.P291L|OGG1_uc003bsj.2_Missense_Mutation_p.P291L|OGG1_uc003bsk.2_Missense_Mutation_p.P291L|OGG1_uc003bsl.2_Missense_Mutation_p.P291L|OGG1_uc003bsm.2_Missense_Mutation_p.P291L|OGG1_uc003bsn.2_Intron|OGG1_uc003bso.2_Intron|OGG1_uc003bsp.1_Missense_Mutation_p.P56L|OGG1_uc010hcm.1_Intron|OGG1_uc003bsq.1_Intron|OGG1_uc003bsr.1_Missense_Mutation_p.P56L	NM_002542	NP_002533	O15527	OGG1_HUMAN	8-oxoguanine DNA-glycosylase 1 isoform 1a	291					depurination|nucleotide-excision repair|regulation of protein import into nucleus, translocation|regulation of transcription, DNA-dependent|response to oxidative stress|response to radiation	mitochondrion|nuclear matrix|nuclear speck	damaged DNA binding|endonuclease activity|oxidized purine base lesion DNA N-glycosylase activity|protein binding				0	Medulloblastoma(99;0.227)					GCGAAGGGACCGAGCCCCCAG	0.602000								BER_DNA_glycosylases					30	165					0	0	0.009535	0	0
ALS2CL	259173	broad.mit.edu	37	3	46725305	46725305	+	Missense_Mutation	SNP	C	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr3:46725305C>G	uc003cqa.1	-	9	1069	c.879G>C	c.(877-879)GAG>GAC	p.E293D	ALS2CL_uc003cpz.1_5'Flank|ALS2CL_uc003cqb.1_Missense_Mutation_p.E293D|ALS2CL_uc003cqc.1_RNA	NM_147129	NP_667340	Q60I27	AL2CL_HUMAN	ALS2 C-terminal like isoform 1	293					endosome organization|regulation of Rho protein signal transduction		GTPase activator activity|identical protein binding|Rho guanyl-nucleotide exchange factor activity			breast(2)|central_nervous_system(2)|skin(1)	5				BRCA - Breast invasive adenocarcinoma(193;0.000726)|KIRC - Kidney renal clear cell carcinoma(197;0.0171)|Kidney(197;0.0202)		AAAAGGAGAACTCTTCTTCGG	0.607000													227	355					0	0	0.014410	0	0
UBA3	9039	broad.mit.edu	37	3	69124597	69124597	+	Missense_Mutation	SNP	T	C	C			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr3:69124597T>C	uc003dno.2	-	4	268	c.248A>G	c.(247-249)GAG>GGG	p.E83G	UBA3_uc003dnq.2_Missense_Mutation_p.E69G|UBA3_uc011bfy.1_5'UTR|UBA3_uc011bfz.1_Intron	NM_003968	NP_003959	Q8TBC4	UBA3_HUMAN	ubiquitin-activating enzyme 3 isoform 1	83					protein neddylation|proteolysis	nucleus	acid-amino acid ligase activity|ATP binding|protein heterodimerization activity			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.98e-05)|Epithelial(33;0.000363)|LUSC - Lung squamous cell carcinoma(21;0.012)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.206)|Kidney(39;0.241)		TTTCAGGAGCTCACATCCTAA	0.328000													3	141					0	0	0.004672	0	0
PLA1A	51365	broad.mit.edu	37	3	119331938	119331938	+	Missense_Mutation	SNP	G	A	A	rs140761557		TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr3:119331938G>A	uc003ecu.2	+	5	676	c.637G>A	c.(637-639)GTG>ATG	p.V213M	PLA1A_uc003ecv.2_Missense_Mutation_p.V197M|PLA1A_uc003ecw.2_RNA|PLA1A_uc011bjc.1_Missense_Mutation_p.V40M	NM_015900	NP_056984	Q53H76	PLA1A_HUMAN	phospholipase A1 member A precursor	213				V -> T (in Ref. 4; BAD96425).	lipid catabolic process|phosphatidylserine metabolic process	extracellular region	phospholipase A1 activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						TGCCCTCTTCGTGGAAGCCAT	0.572000													14	71					0	0	0.020292	0	0
DNAJB8	165721	broad.mit.edu	37	3	128181559	128181559	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr3:128181559G>A	uc003ekk.1	-	3	2191	c.530C>T	c.(529-531)TCG>TTG	p.S177L	uc003ekl.1_5'Flank	NM_153330	NP_699161	Q8NHS0	DNJB8_HUMAN	DnaJ homolog, subfamily B, member 8	177					protein folding		heat shock protein binding|unfolded protein binding				0				GBM - Glioblastoma multiforme(114;0.177)		CTTGAACCCCGAGCTGCCAGA	0.612000													50	203					0	0	0.014410	0	0
SMC4	10051	broad.mit.edu	37	3	160146591	160146591	+	Missense_Mutation	SNP	C	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr3:160146591C>G	uc003fdh.2	+	18	2769	c.2656C>G	c.(2656-2658)CGC>GGC	p.R886G	IFT80_uc003fda.2_Intron|SMC4_uc003fdi.2_Missense_Mutation_p.R861G|SMC4_uc003fdj.2_Missense_Mutation_p.R886G|SMC4_uc010hwd.2_Missense_Mutation_p.R886G|SMC4_uc003fdl.2_Missense_Mutation_p.R589G	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes	886	Potential.				cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			TGAGGTTAAACGCTTACACAA	0.323000													8	322					0	0	0.003080	0	0
MUC4	4585	broad.mit.edu	37	3	195505835	195505835	+	Missense_Mutation	SNP	C	T	T	rs58500707	by1000genomes	TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr3:195505835C>T	uc011bto.1	-	3	12692	c.12232G>A	c.(12232-12234)GCC>ACC	p.A4078T	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_Intron|MUC4_uc011btg.1_Intron|MUC4_uc011bth.1_Intron|MUC4_uc011bti.1_Intron|MUC4_uc011btj.1_Intron|MUC4_uc011btk.1_Intron|MUC4_uc011btl.1_Intron|MUC4_uc011btm.1_Intron|MUC4_uc011btn.1_Intron|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AGAGGGGTGGCGTGACCTGTG	0.597000													6	32					0	0	0.003080	0	0
MUC4	4585	broad.mit.edu	37	3	195505838	195505838	+	Missense_Mutation	SNP	G	C	C	rs59101491		TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr3:195505838G>C	uc011bto.1	-	3	12689	c.12229C>G	c.(12229-12231)CAC>GAC	p.H4077D	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_Intron|MUC4_uc011btg.1_Intron|MUC4_uc011bth.1_Intron|MUC4_uc011bti.1_Intron|MUC4_uc011btj.1_Intron|MUC4_uc011btk.1_Intron|MUC4_uc011btl.1_Intron|MUC4_uc011btm.1_Intron|MUC4_uc011btn.1_Intron|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GGGGTGGCGTGACCTGTGGAT	0.597000													5	31					0	0	0.001984	0	0
JAKMIP1	152789	broad.mit.edu	37	4	6052368	6052368	+	Silent	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr4:6052368G>A	uc010idb.1	-	14	2331	c.1845C>T	c.(1843-1845)ATC>ATT	p.I615I	JAKMIP1_uc010idc.1_Silent_p.I430I|JAKMIP1_uc010idd.1_Intron	NM_001099433	NP_001092903	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						GGAAGGTGGTGATTTGGAGGT	0.522000													4	24					0	0	0.014758	0	0
ABLIM2	84448	broad.mit.edu	37	4	8062778	8062778	+	Missense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr4:8062778C>T	uc003gko.2	-	7	822	c.679G>A	c.(679-681)GGA>AGA	p.G227R	ABLIM2_uc003gkl.2_5'UTR|ABLIM2_uc003gkj.3_Missense_Mutation_p.G227R|ABLIM2_uc003gkm.3_Missense_Mutation_p.G227R|ABLIM2_uc003gkp.2_Missense_Mutation_p.G227R|ABLIM2_uc003gkq.2_Missense_Mutation_p.G227R|ABLIM2_uc003gkr.2_Missense_Mutation_p.G227R|ABLIM2_uc003gks.3_Missense_Mutation_p.G227R|ABLIM2_uc011bwl.1_Missense_Mutation_p.G232R	NM_001130084	NP_001123556	Q6H8Q1	ABLM2_HUMAN	actin binding LIM protein family, member 2	227	LIM zinc-binding 4.		G -> R (in a pancreatic ductal adenocarcinoma sample; somatic mutation).		axon guidance|cytoskeleton organization	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus	actin binding|zinc ion binding	p.G227R(1)		pancreas(3)	3						TGCTTCTCTCCGGCCTGTAAG	0.517000													13	26					0	0	0.020292	0	0
HMX1	3166	broad.mit.edu	37	4	8869790	8869790	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr4:8869790G>A	uc003izz.1	-	2	879	c.676C>T	c.(676-678)CGC>TGC	p.R226C		NM_018942	NP_061815	Q9NP08	HMX1_HUMAN	homeo box (H6 family) 1	226	Homeobox.				multicellular organismal development|negative regulation of transcription, DNA-dependent		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						CTCAGGTAGCGCTTCAGGTCG	0.537000													5	19					0	0	0.001168	0	0
HSP90AB2P	391634	broad.mit.edu	37	4	13339453	13339453	+	RNA	SNP	G	A	A	rs16898654	by1000genomes	TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr4:13339453G>A	uc003gms.2	+	1		c.4417G>A				NR_003132				Homo sapiens heat shock protein 90Bb (HSP90Bb) mRNA, complete cds.											kidney(1)	1						GATGCCACCCGTCTGAGCTGC	0.428000													19	95					0	0	0.016522	0	0
EPHA5	2044	broad.mit.edu	37	4	66467438	66467438	+	Silent	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr4:66467438G>A	uc003hcy.2	-	3	1024	c.831C>T	c.(829-831)AGC>AGT	p.S277S	EPHA5_uc003hcx.2_Silent_p.S208S|EPHA5_uc003hcz.2_Silent_p.S277S|EPHA5_uc011cah.1_Silent_p.S277S|EPHA5_uc011cai.1_Silent_p.S277S|EPHA5_uc003hda.2_Silent_p.S277S	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	277	Extracellular (Potential).|Cys-rich.				cAMP-mediated signaling|neuron development	dendrite|external side of plasma membrane|integral to plasma membrane|neuronal cell body|perinuclear region of cytoplasm|rough endoplasmic reticulum	ATP binding|transmembrane-ephrin receptor activity			lung(19)|stomach(2)|ovary(2)|central_nervous_system(1)	24						CCCCTTCGGCGCTGCAGTGCA	0.522000										TSP Lung(17;0.13)			6	314					0	0	0.001168	0	0
WDFY3	23001	broad.mit.edu	37	4	85660237	85660237	+	Missense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr4:85660237C>T	uc003hpd.2	-	40	6908	c.6500G>A	c.(6499-6501)CGC>CAC	p.R2167H		NM_014991	NP_055806	Q8IZQ1	WDFY3_HUMAN	WD repeat and FYVE domain containing 3 isoform	2167						cytoplasmic part|extrinsic to membrane|nuclear envelope	1-phosphatidylinositol binding|metal ion binding|protein binding			ovary(2)|central_nervous_system(1)	3		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000808)		TGTGGTCATGCGGGCTTCTGC	0.413000													7	383					0	0	0.003080	0	0
ANK2	287	broad.mit.edu	37	4	114274319	114274319	+	Missense_Mutation	SNP	C	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr4:114274319C>G	uc003ibe.3	+	38	4645	c.4545C>G	c.(4543-4545)ATC>ATG	p.I1515M	ANK2_uc003ibd.3_Intron|ANK2_uc003ibf.3_Intron|ANK2_uc011cgc.1_Intron|ANK2_uc003ibg.3_Intron|ANK2_uc003ibh.3_Intron|ANK2_uc011cgd.1_5'Flank|ANK2_uc011cgb.1_Missense_Mutation_p.I1530M	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1482					axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		AAGATTTGATCAAAATGACCG	0.458000													32	433					0	0	0.019004	0	0
C5orf49	134121	broad.mit.edu	37	5	7835572	7835572	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr5:7835572G>A	uc003jea.3	-	2	317	c.187C>T	c.(187-189)CGC>TGC	p.R63C		NM_001089584	NP_001083053	A4QMS7	CE049_HUMAN	hypothetical protein LOC134121	63											0						TAATCTAGGCGCCTCTTAAAA	0.388000													91	329					0	0	0.014410	0	0
CDH12	1010	broad.mit.edu	37	5	21817207	21817207	+	Silent	SNP	A	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr5:21817207A>G	uc010iuc.2	-	6	1307	c.849T>C	c.(847-849)CCT>CCC	p.P283P	CDH12_uc011cno.1_Silent_p.P243P|CDH12_uc003jgk.2_Silent_p.P283P	NM_004061	NP_004052	P55289	CAD12_HUMAN	cadherin 12, type 2 preproprotein	283	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)	2						CTGAACCAATAGGGGAAGACT	0.373000										HNSCC(59;0.17)			4	283					0	0	0.014758	0	0
AQPEP	206338	broad.mit.edu	37	5	115327882	115327882	+	Missense_Mutation	SNP	G	C	C			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr5:115327882G>C	uc003kro.2	+	5	1332	c.1168G>C	c.(1168-1170)GAT>CAT	p.D390H	AQPEP_uc003krp.2_RNA	NM_173800	NP_776161	Q6Q4G3	AMPQ_HUMAN	laeverin	390	Lumenal (Potential).				proteolysis	integral to membrane	metallopeptidase activity|zinc ion binding				0						AATGATATTTGATGAATCAGG	0.378000													9	391					0	0	0.006214	0	0
PCDHA11	56138	broad.mit.edu	37	5	140250283	140250283	+	Missense_Mutation	SNP	T	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr5:140250283T>G	uc003lia.2	+	1	2453	c.1595T>G	c.(1594-1596)TTC>TGC	p.F532C	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Missense_Mutation_p.F532C	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	532	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTGCTACAGTTCCAGGTGAGC	0.682000													99	548					0	0	0.014410	0	0
TRIM38	10475	broad.mit.edu	37	6	25983853	25983853	+	Missense_Mutation	SNP	C	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr6:25983853C>G	uc003nfm.2	+	8	1771	c.1336C>G	c.(1336-1338)CTC>GTC	p.L446V	TRIM38_uc003nfn.2_Missense_Mutation_p.L428V|TRIM38_uc010jqd.2_Missense_Mutation_p.L82V	NM_006355	NP_006346	O00635	TRI38_HUMAN	tripartite motif-containing 38	446	B30.2/SPRY.				positive regulation of I-kappaB kinase/NF-kappaB cascade	intracellular	signal transducer activity|zinc ion binding				0						CTCTGATACTCTCCGGCCCTA	0.463000													22	336					0	0	0.010504	0	0
KHDRBS2	202559	broad.mit.edu	37	6	62604694	62604694	+	Missense_Mutation	SNP	C	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr6:62604694C>A	uc003peg.2	-	6	903	c.656G>T	c.(655-657)GGT>GTT	p.G219V		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	219	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	SH3 domain binding			skin(7)|ovary(3)|liver(1)	11				BRCA - Breast invasive adenocarcinoma(397;0.149)		GGTGAGAACACCTCGTCCAGG	0.592000													95	143					2.77303e-49	3.18295e-49	0.014410	1	0
POM121L12	285877	broad.mit.edu	37	7	53104149	53104149	+	Missense_Mutation	SNP	C	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr7:53104149C>G	uc003tpz.2	+	1	801	c.785C>G	c.(784-786)TCC>TGC	p.S262C		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	262											0						CCCGCCCCATCCGCCATCTGG	0.657000													66	222					0	0	0.014410	0	0
POM121	9883	broad.mit.edu	37	7	72413896	72413896	+	Missense_Mutation	SNP	A	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr7:72413896A>G	uc003twk.2	+	11	3364	c.3364A>G	c.(3364-3366)ACC>GCC	p.T1122A	POM121_uc003twj.2_Missense_Mutation_p.T857A|POM121_uc010lam.1_Missense_Mutation_p.T857A	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	1122	Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				AGGCTCCAGCACCACCACCGG	0.637000													5	135					0	0	0.014758	0	0
DLX5	1749	broad.mit.edu	37	7	96651625	96651625	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr7:96651625G>A	uc003uon.2	-	2	620	c.412C>T	c.(412-414)CGT>TGT	p.R138C	DLX5_uc011kim.1_Missense_Mutation_p.R138C	NM_005221	NP_005212	P56178	DLX5_HUMAN	distal-less homeobox 5	138	Homeobox.				cell proliferation|endochondral ossification|osteoblast differentiation|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(62;9.56e-09)|all_epithelial(64;7.38e-09)|Esophageal squamous(72;0.0125)|all_lung(186;0.0855)|Lung NSC(181;0.0858)					CTGGGTTTACGAACTTTCTTT	0.478000													67	421					0	0	0.014410	0	0
TRRAP	8295	broad.mit.edu	37	7	98608794	98608794	+	Missense_Mutation	SNP	C	G	G	rs149229740		TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr7:98608794C>G	uc003upp.2	+	70	11225	c.11016C>G	c.(11014-11016)TTC>TTG	p.F3672L	TRRAP_uc011kis.1_Missense_Mutation_p.F3643L|TRRAP_uc003upr.2_Missense_Mutation_p.F3378L|TRRAP_uc003ups.2_5'Flank	NM_003496	NP_003487	Q9Y4A5	TRRAP_HUMAN	transformation/transcription domain-associated	3672	PI3K/PI4K.				histone deubiquitination|histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity			ovary(9)|large_intestine(8)|central_nervous_system(6)|skin(6)|stomach(5)|upper_aerodigestive_tract(1)|lung(1)|liver(1)	37	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			GGAAGATGTTCACCATCCAGC	0.537000													134	352					0	0	0.014410	0	0
SLC26A4	5172	broad.mit.edu	37	7	107341590	107341590	+	Silent	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr7:107341590G>A	uc003vep.2	+	16	1976	c.1752G>A	c.(1750-1752)GCG>GCA	p.A584A	SLC26A4_uc011kmb.1_Silent_p.A171A|SLC26A4_uc011kmc.1_Silent_p.A145A|SLC26A4_uc011kmd.1_Silent_p.A153A	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	584	STAS.|Cytoplasmic (Potential).				regulation of pH|regulation of protein localization|sensory perception of sound	apical plasma membrane|integral to membrane	chloride transmembrane transporter activity|inorganic anion exchanger activity|iodide transmembrane transporter activity|secondary active sulfate transmembrane transporter activity			ovary(3)|central_nervous_system(2)|skin(2)	7						GGCTGAAAGCGCTGAGGAAAA	0.343000									Pendred_syndrome				98	473					0	0	0.014410	0	0
ST7	7982	broad.mit.edu	37	7	116869933	116869933	+	Missense_Mutation	SNP	A	C	C			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr7:116869933A>C	uc011knn.1	+	14	1465	c.1460A>C	c.(1459-1461)CAC>CCC	p.H487P	ST7_uc003vio.2_3'UTR|ST7_uc003viq.2_3'UTR|ST7_uc011knm.1_3'UTR|ST7_uc003vir.2_3'UTR	NM_021908	NP_068708	Q9NRC1	ST7_HUMAN	suppression of tumorigenicity 7 isoform b	Error:Variant_position_missing_in_Q9NRC1_after_alignment						integral to membrane	binding			central_nervous_system(1)|skin(1)	2	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		TCCTCCACTCACCTCACCCGC	0.522000													36	154					0	0	0.014410	0	0
GRM8	2918	broad.mit.edu	37	7	126079198	126079198	+	Missense_Mutation	SNP	A	G	G			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr7:126079198A>G	uc003vlr.2	-	10	3013	c.2702T>C	c.(2701-2703)ATC>ACC	p.I901T	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_3'UTR|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	901	Cytoplasmic (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				lung(15)|ovary(5)|pancreas(1)|breast(1)|skin(1)	23		Prostate(267;0.186)			L-Glutamic Acid(DB00142)	GCTGTAACTGATATATGTTGT	0.299000										HNSCC(24;0.065)			13	738					0	0	0.016723	0	0
ATG9B	285973	broad.mit.edu	37	7	150713842	150713842	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr7:150713842G>A	uc011kvc.1	-	12	2433	c.2357C>T	c.(2356-2358)GCC>GTC	p.A786V	ATG9B_uc003wig.3_RNA	NM_173681	NP_775952	Q674R7	ATG9B_HUMAN	ATG9 autophagy related 9 homolog B	786	Cytoplasmic (By similarity).				autophagic vacuole assembly	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane				ovary(1)	1	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TGGACAGGGGGCTGTCGGGCT	0.637000													14	78					0	0	0.016723	0	0
KCNU1	157855	broad.mit.edu	37	8	36671821	36671821	+	Missense_Mutation	SNP	G	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr8:36671821G>A	uc010lvw.2	+	8	916	c.829G>A	c.(829-831)GTT>ATT	p.V277I	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	277	Selectivity for potassium.					voltage-gated potassium channel complex	binding|large conductance calcium-activated potassium channel activity|voltage-gated potassium channel activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(67;0.0504)|Kidney(114;0.0634)		AACGTCAACCGTTGGATTTGG	0.398000													76	83					0	0	0.014410	0	0
ZFHX4	79776	broad.mit.edu	37	8	77768157	77768157	+	Silent	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr8:77768157C>T	uc003yav.2	+	10	9252	c.8865C>T	c.(8863-8865)GGC>GGT	p.G2955G	ZFHX4_uc003yau.1_Silent_p.G3000G|ZFHX4_uc003yaw.1_Silent_p.G2955G	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2955						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding	p.G2984G(1)		ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			TCAATCAAGGCGGAACGGAAG	0.468000										HNSCC(33;0.089)			20	143					0	0	0.012319	0	0
ASAP1	50807	broad.mit.edu	37	8	131073032	131073032	+	Silent	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr8:131073032C>T	uc003yta.1	-	27	3013	c.2985G>A	c.(2983-2985)CTG>CTA	p.L995L	ASAP1_uc003ysz.1_Silent_p.L806L|ASAP1_uc011liw.1_Silent_p.L988L	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	995					cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						GCAGGTCTCCCAGCTGTGGTT	0.567000													269	617					0	0	0.014410	0	0
SLC1A1	6505	broad.mit.edu	37	9	4544707	4544707	+	Missense_Mutation	SNP	G	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr9:4544707G>T	uc003zij.1	+	2	468	c.232G>T	c.(232-234)GGT>TGT	p.G78C		NM_004170	NP_004161	P43005	EAA3_HUMAN	solute carrier family 1, member 1	78	Helical; (Potential).				D-aspartate import|L-glutamate import|synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity				0		Acute lymphoblastic leukemia(2;0.0359)|Breast(48;0.0457)		GBM - Glioblastoma multiforme(50;0.0124)|Lung(218;0.183)	L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)	CATGATTACAGGTACCTTGAG	0.229000													6	202					4.096e-09	4.46836e-09	0.001168	1	0
FAM154A	158297	broad.mit.edu	37	9	18950933	18950933	+	Missense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr9:18950933C>T	uc003zni.1	-	2	319	c.41G>A	c.(40-42)CGG>CAG	p.R14Q	FAM154A_uc010mip.1_5'UTR	NM_153707	NP_714918	Q8IYX7	F154A_HUMAN	hypothetical protein LOC158297	14										pancreas(1)	1				GBM - Glioblastoma multiforme(50;6.53e-16)		ACAGTGATGCCGCCTATAAAA	0.408000													36	238					0	0	0.007835	0	0
C9orf156	51531	broad.mit.edu	37	9	100678551	100678551	+	Missense_Mutation	SNP	T	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr9:100678551T>A	uc004axv.1	-	2	223	c.146A>T	c.(145-147)CAG>CTG	p.Q49L	C9orf156_uc004axw.1_5'UTR|C9orf156_uc004axx.1_5'UTR|C9orf156_uc010msq.1_5'UTR	NM_016481	NP_057565	Q9BU70	NAP1_HUMAN	Nef associated protein 1	49					interspecies interaction between organisms		hydrolase activity				0		Acute lymphoblastic leukemia(62;0.158)				AATGGATGGCTGTCTTGGAGT	0.398000													22	281					0	0	0.010504	0	0
PAPPA	5069	broad.mit.edu	37	9	119129985	119129985	+	Silent	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr9:119129985C>T	uc004bjn.2	+	19	4938	c.4557C>T	c.(4555-4557)AAC>AAT	p.N1519N	PAPPA_uc011lxq.1_Silent_p.N894N	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	1519	Sushi 5.				cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						TGCCAATGAACGTGACCGTGC	0.607000													29	43					0	0	0.012213	0	0
SEC16A	9919	broad.mit.edu	37	9	139360435	139360435	+	Missense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr9:139360435C>T	uc004chx.2	-	8	4591	c.4282G>A	c.(4282-4284)GTC>ATC	p.V1428I	SEC16A_uc004chv.3_Missense_Mutation_p.V818I|SEC16A_uc004chw.2_Missense_Mutation_p.V1428I|SEC16A_uc010nbn.2_Missense_Mutation_p.V1428I	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1250					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|Golgi membrane					0		Myeloproliferative disorder(178;0.0511)		Epithelial(140;2.9e-06)|OV - Ovarian serous cystadenocarcinoma(145;5.88e-06)		GCAGGCCAGACGGTGTCGGCA	0.627000													31	272					0	0	0.017118	0	0
GAGE2A	729447	broad.mit.edu	37	X	49355893	49355893	+	Missense_Mutation	SNP	C	G	G	rs147803166	by1000genomes	TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chrX:49355893C>G	uc004doi.3	+	3	272	c.175C>G	c.(175-177)CAG>GAG	p.Q59E	GAGE1_uc011mnu.1_Intron|GAGE1_uc004doj.2_Intron	NM_001127212	NP_001120684	Q6NT46	GAG2A_HUMAN	G antigen 2A	59											0	Ovarian(276;0.236)					TCAGGAGGGACAGGATGAGGG	0.443000													9	933					0	0	0.001984	0	0
PCDH19	57526	broad.mit.edu	37	X	99663330	99663330	+	Missense_Mutation	SNP	C	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chrX:99663330C>T	uc010nmz.2	-	1	1942	c.266G>A	c.(265-267)CGT>CAT	p.R89H	PCDH19_uc004efw.3_Missense_Mutation_p.R89H|PCDH19_uc004efx.3_Missense_Mutation_p.R89H	NM_020766	NP_001098713	Q8TAB3	PCD19_HUMAN	protocadherin 19 isoform b	89	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	7						CAGCAGATCACGGTCAATCTT	0.567000													54	70					0	0	0.014410	0	0
AJAP1	55966	broad.mit.edu	37	1	4772583	4772585	+	In_Frame_Del	DEL	CCA	-	-	rs141981296	byFrequency	TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr1:4772583_4772585delCCA	uc001alm.1	+	2	1034_1036	c.653_655delCCA	c.(652-657)GCCACC>GCC	p.T225del	AJAP1_uc001aln.2_In_Frame_Del_p.T225del	NM_001042478	NP_001035943	Q9UKB5	AJAP1_HUMAN	adherens junction associated protein 1	225	Thr-rich.|Extracellular (Potential).				cell adhesion	adherens junction|apical plasma membrane|basolateral plasma membrane|integral to membrane				lung(1)	1	all_cancers(77;0.071)|Ovarian(185;0.0721)	all_cancers(23;1.77e-36)|all_epithelial(116;1.26e-21)|all_lung(118;3.51e-08)|Lung NSC(185;3.47e-06)|all_neural(13;8.84e-06)|all_hematologic(16;7.61e-05)|Breast(487;0.000507)|Renal(390;0.0007)|Colorectal(325;0.00117)|Hepatocellular(190;0.0071)|Glioma(11;0.0155)|Myeloproliferative disorder(586;0.0258)|Ovarian(437;0.0409)|Lung SC(97;0.133)|Medulloblastoma(700;0.215)		Epithelial(90;3.89e-35)|OV - Ovarian serous cystadenocarcinoma(86;1.97e-19)|GBM - Glioblastoma multiforme(42;3.71e-19)|Colorectal(212;4.57e-06)|COAD - Colon adenocarcinoma(227;0.00019)|Kidney(185;0.000969)|BRCA - Breast invasive adenocarcinoma(365;0.00122)|STAD - Stomach adenocarcinoma(132;0.00578)|KIRC - Kidney renal clear cell carcinoma(229;0.0126)|READ - Rectum adenocarcinoma(331;0.0689)		ACTGTGGccgccaccaccaccac	0.502													9	125	---	---	---	---					
CDC7	8317	broad.mit.edu	37	1	91967357	91967357	+	Frame_Shift_Del	DEL	A	-	-			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr1:91967357delA	uc001doe.2	+	2	249	c.84delA	c.(82-84)TTAfs	p.L28fs	CDC7_uc001dof.2_Frame_Shift_Del_p.L28fs|CDC7_uc010osw.1_Frame_Shift_Del_p.L28fs|CDC7_uc009wdc.2_Frame_Shift_Del_p.L28fs	NM_003503	NP_003494	O00311	CDC7_HUMAN	cell division cycle 7	28					cell cycle checkpoint|cell division|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|positive regulation of cell proliferation|regulation of S phase	cytoplasm|nucleoplasm	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			stomach(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	5		all_lung(203;0.0165)|Lung NSC(277;0.0562)		all cancers(265;0.00108)|Epithelial(280;0.0184)|KIRC - Kidney renal clear cell carcinoma(1967;0.124)		AAGGCTCTTTAAAAAAAAACG	0.403													9	542	---	---	---	---					
TP53	7157	broad.mit.edu	37	17	7574007	7574009	+	In_Frame_Del	DEL	CAT	-	-			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr17:7574007_7574009delCAT	uc002gim.2	-	10	1212_1214	c.1018_1020delATG	c.(1018-1020)ATGdel	p.M340del	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Intron|TP53_uc010cne.1_Intron|TP53_uc010cnf.1_3'UTR|TP53_uc010cng.1_3'UTR|TP53_uc002gii.1_In_Frame_Del_p.M208del|TP53_uc010cnh.1_3'UTR|TP53_uc010cni.1_3'UTR|TP53_uc002gij.2_In_Frame_Del_p.M340del	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	340	Oligomerization.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.|Nuclear export signal.|Interaction with HIPK2.				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.0?(7)|p.I332fs*5(1)|p.?(1)|p.M340V(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)		GCTCTCGGAACATCTCGAAGCGC	0.478		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)			62	101	---	---	---	---					
STAT5B	6777	broad.mit.edu	37	17	40370236	40370236	+	Frame_Shift_Del	DEL	G	-	-	rs144993426		TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr17:40370236delG	uc002hzh.2	-	9	1271	c.1102delC	c.(1102-1104)CAGfs	p.Q368fs	STAT5B_uc002hzi.3_Frame_Shift_Del_p.Q368fs	NM_012448	NP_036580	P51692	STA5B_HUMAN	signal transducer and activator of transcription	368					2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|JAK-STAT cascade involved in growth hormone signaling pathway|oxaloacetate metabolic process|response to estradiol stimulus|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|glucocorticoid receptor binding|sequence-specific DNA binding transcription factor activity			ovary(3)|lung(2)|skin(1)	6		all_cancers(22;4.15e-07)|all_epithelial(22;2.83e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.135)	Dasatinib(DB01254)	GCCTTCACCTGGGGGGGGTTC	0.577													7	223	---	---	---	---					
SIGLEC7	27036	broad.mit.edu	37	19	51645628	51645630	+	In_Frame_Del	DEL	TGC	-	-			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr19:51645628_51645630delTGC	uc002pvv.1	+	1	71_73	c.2_4delTGC	c.(1-6)ATGCTG>ATG	p.L7del	SIGLEC7_uc002pvw.1_In_Frame_Del_p.L7del|SIGLEC7_uc010eoq.1_RNA|SIGLEC7_uc010eor.1_In_Frame_Del_p.L7del	NM_014385	NP_055200	Q9Y286	SIGL7_HUMAN	sialic acid binding Ig-like lectin 7 isoform 1	7					cell adhesion	integral to plasma membrane	receptor activity|sugar binding			large_intestine(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000836)|OV - Ovarian serous cystadenocarcinoma(262;0.00297)		ACCCCAGATAtgctgctgctgct	0.502													7	126	---	---	---	---					
RANBP2	5903	broad.mit.edu	37	2	109384325	109384326	+	Frame_Shift_Ins	INS	-	A	A			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr2:109384325_109384326insA	uc002tem.3	+	20	7456_7457	c.7330_7331insA	c.(7330-7332)GAAfs	p.E2444fs		NM_006267	NP_006258	P49792	RBP2_HUMAN	RAN binding protein 2	2444	RanBD1 3.				carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein folding|protein import into nucleus|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|nuclear pore	peptidyl-prolyl cis-trans isomerase activity|Ran GTPase binding|zinc ion binding		RANBP2/ALK(16)	soft_tissue(16)|lung(1)|pancreas(1)	18						AACAGCCCAGGAAAAAGATTCT	0.386													27	872	---	---	---	---					
SYNCRIP	10492	broad.mit.edu	37	6	86332353	86332354	+	Frame_Shift_Ins	INS	-	T	T			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr6:86332353_86332354insT	uc003pla.2	-	8	1395_1396	c.854_855insA	c.(853-855)AACfs	p.N285fs	SYNCRIP_uc003pku.2_Frame_Shift_Ins_p.N285fs|SYNCRIP_uc003pkw.2_Frame_Shift_Ins_p.N285fs|SYNCRIP_uc003pky.2_Frame_Shift_Ins_p.N187fs|SYNCRIP_uc003pkv.2_Frame_Shift_Ins_p.N285fs|SYNCRIP_uc003pkx.2_Frame_Shift_Ins_p.N133fs|SYNCRIP_uc003pkz.2_Frame_Shift_Ins_p.N285fs	NM_006372	NP_006363	O60506	HNRPQ_HUMAN	synaptotagmin binding, cytoplasmic RNA	285	RRM 2.				CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)		AAAAGCCTCTGTTTTTTTTCTT	0.411													8	653	---	---	---	---					
POU6F2	11281	broad.mit.edu	37	7	39379288	39379290	+	In_Frame_Del	DEL	CAG	-	-			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr7:39379288_39379290delCAG	uc003thb.1	+	5	601_603	c.559_561delCAG	c.(559-561)CAGdel	p.Q196del	POU6F2_uc010kxo.2_In_Frame_Del_p.Q188del	NM_007252	NP_009183	P78424	PO6F2_HUMAN	POU class 6 homeobox 2 isoform 1	196	Gln-rich.			Q -> QQ (in Ref. 1; AAB49727/AAB49728).	central nervous system development|ganglion mother cell fate determination|transcription from RNA polymerase II promoter|visual perception		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						gctccagctccagcagcagcagc	0.365													11	126	---	---	---	---					
SFTPC	6440	broad.mit.edu	37	8	22020159	22020161	+	In_Frame_Del	DEL	GTG	-	-			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr8:22020159_22020161delGTG	uc003xax.3	+	2	273_275	c.115_117delGTG	c.(115-117)GTGdel	p.V44del	SFTPC_uc003xaw.3_In_Frame_Del_p.V93del|SFTPC_uc011kza.1_In_Frame_Del_p.V44del|SFTPC_uc003xaz.2_In_Frame_Del_p.V44del|SFTPC_uc003xay.3_In_Frame_Del_p.V44del|BMP1_uc011kzb.1_5'Flank|BMP1_uc003xba.2_5'Flank|BMP1_uc003xbb.2_5'Flank|BMP1_uc003xbe.2_5'Flank|BMP1_uc003xbc.2_5'Flank|BMP1_uc003xbd.2_5'Flank|BMP1_uc003xbf.2_5'Flank|BMP1_uc003xbg.2_5'Flank|BMP1_uc011kzc.1_5'Flank|BMP1_uc003xbh.2_5'Flank|BMP1_uc003xbi.2_5'Flank	NM_003018	NP_003009	P11686	PSPC_HUMAN	surfactant protein C precursor	44					respiratory gaseous exchange	extracellular space					0				Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		CCTTCTTATCGTGGTGGTGGTGG	0.601													7	420	---	---	---	---					
TG	7038	broad.mit.edu	37	8	133995617	133995617	+	Frame_Shift_Del	DEL	T	-	-			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr8:133995617delT	uc003ytw.2	+	35	6263	c.6222delT	c.(6220-6222)AGTfs	p.S2074fs	TG_uc010mdw.2_Frame_Shift_Del_p.S833fs|TG_uc011ljb.1_Frame_Shift_Del_p.S443fs|TG_uc011ljc.1_Intron	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	2074	Type IIIB.				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)		ATGCTCCCAGTTTTTGCCCTT	0.393													9	1509	---	---	---	---					
ROR2	4920	broad.mit.edu	37	9	94486026	94486028	+	In_Frame_Del	DEL	TCC	-	-			TCGA-FQ-6558-01A-11D-1795-08	TCGA-FQ-6558-11A-01D-1795-08									Somatic	Phase_I	Capture				Illumina GAIIx	a882c891-3bf7-4efe-a0f0-8c85fc4e5442	76c0cde2-42a1-4c26-9cde-347ff0d7d87e	g.chr9:94486026_94486028delTCC	uc004arj.1	-	9	2947_2949	c.2748_2750delGGA	c.(2746-2751)GAGGAA>GAA	p.916_917EE>E	ROR2_uc004ari.1_Intron	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	916_917	Cytoplasmic (Potential).				negative regulation of cell proliferation|positive regulation of cell migration|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity|Wnt-protein binding			lung(8)|central_nervous_system(5)|ovary(3)|large_intestine(2)|stomach(1)|breast(1)	20						GACAGAGCCTTCCTCCTCCTCCT	0.645													7	572	---	---	---	---					
