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
CLCNKB	1188	broad.mit.edu	37	1	16382952	16382953	+	Missense_Mutation	DNP	CC	AA	AA			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:16382952_16382953CC>AA	uc001axw.3	+	19	2045_2046	c.1965_1966CC>AA	c.(1963-1968)TCCCTC>TCAATC	p.L656I	FAM131C_uc010obz.1_Intron|CLCNKB_uc001axx.3_Missense_Mutation_p.L656I|CLCNKB_uc001axy.3_Missense_Mutation_p.L486I	NM_000085	NP_000076	P51801	CLCKB_HUMAN	chloride channel Kb isoform 1	656	CBS 2.				excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			skin(1)	1		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		ACCTTCATTCCCTCTTTGTGAC	0.599000											OREG0013133	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	323					0	0	6.4e-05	0	0
KDM1A	23028	broad.mit.edu	37	1	23381582	23381583	+	Missense_Mutation	DNP	CG	AT	AT			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:23381582_23381583CG>AT	uc001bgi.2	+	5	900_901	c.751_752CG>AT	c.(751-753)CGA>ATA	p.R251I	KDM1A_uc001bgj.2_Missense_Mutation_p.R271I	NM_015013	NP_055828	O60341	KDM1A_HUMAN	lysine-specific histone demethylase 1 isoform b	251	SWIRM.				blood coagulation|muscle cell development|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of protein binding|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nuclear chromatin	androgen receptor binding|chromatin binding|enzyme binding|flavin adenine dinucleotide binding|histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-K9 specific)|ligand-dependent nuclear receptor transcription coactivator activity|MyoD binding|oxidoreductase activity|p53 binding|transcription regulatory region DNA binding			ovary(1)|lung(1)	2						GCTTGTCCACCGAGTTCACAGT	0.381000													21	904					0	0	6.4e-05	0	0
HNRNPR	10236	broad.mit.edu	37	1	23650117	23650118	+	Missense_Mutation	DNP	CG	AT	AT			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:23650117_23650118CG>AT	uc001bgr.3	-	6	765_766	c.606_607CG>AT	c.(604-609)TCCGGT>TCATGT	p.G203C	HNRNPR_uc001bgp.3_Missense_Mutation_p.G203C|HNRNPR_uc009vqk.2_Missense_Mutation_p.G102C|HNRNPR_uc001bgs.3_Missense_Mutation_p.G102C|HNRNPR_uc010odw.1_Missense_Mutation_p.G165C|HNRNPR_uc010odx.1_Intron|HNRNPR_uc009vql.2_Missense_Mutation_p.G64C	NM_005826	NP_005817	O43390	HNRPR_HUMAN	heterogeneous nuclear ribonucleoprotein R	203	RRM 1.					catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding			upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;3.46e-05)|Lung NSC(340;4.15e-05)|all_lung(284;6.64e-05)|Renal(390;0.000219)|Breast(348;0.00394)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;6.83e-27)|Colorectal(126;6.01e-08)|COAD - Colon adenocarcinoma(152;3.32e-06)|GBM - Glioblastoma multiforme(114;6.69e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|KIRC - Kidney renal clear cell carcinoma(1967;0.00357)|STAD - Stomach adenocarcinoma(196;0.0131)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0875)|LUSC - Lung squamous cell carcinoma(448;0.19)		CTATTCTGACCGGACAGTGGAT	0.450000													10	883					0	0	6.4e-05	0	0
GRHL3	57822	broad.mit.edu	37	1	24663066	24663067	+	Missense_Mutation	DNP	CC	AA	AA			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:24663066_24663067CC>AA	uc001biy.2	+	4	422_423	c.376_377CC>AA	c.(376-378)CCA>AAA	p.P126K	GRHL3_uc001bix.2_Missense_Mutation_p.P121K|GRHL3_uc001biz.2_Missense_Mutation_p.P28K	NM_021180	NP_067003	Q8TE85	GRHL3_HUMAN	sister-of-mammalian grainyhead protein isoform	121					regulation of actin cytoskeleton organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00171)|all_lung(284;0.00226)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;8.72e-25)|Colorectal(126;4.38e-08)|COAD - Colon adenocarcinoma(152;1.84e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00377)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.143)		GTCTGGAACCCCAGAGTACCCA	0.569000													15	895					0	0	6.4e-05	0	0
C1orf201	90529	broad.mit.edu	37	1	24710446	24710447	+	Missense_Mutation	DNP	CG	AT	AT	rs138455088		TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:24710446_24710447CG>AT	uc001bjc.2	-	4	371_372	c.236_237CG>AT	c.(235-237)CCG>CAT	p.P79H	C1orf201_uc001bja.2_Missense_Mutation_p.P32H|C1orf201_uc001bjb.2_Translation_Start_Site|C1orf201_uc001bjd.2_Missense_Mutation_p.P79H|C1orf201_uc001bje.1_Missense_Mutation_p.P32H|C1orf201_uc001bjf.2_Translation_Start_Site			Q5TH74	CA201_HUMAN	RecName: Full=UPF0490 protein C1orf201;	79										ovary(1)|breast(1)	2		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.0191)|all_lung(284;0.0251)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.056)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;4.48e-25)|Colorectal(126;7.29e-08)|COAD - Colon adenocarcinoma(152;3.85e-06)|GBM - Glioblastoma multiforme(114;0.000399)|BRCA - Breast invasive adenocarcinoma(304;0.00107)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00393)|READ - Rectum adenocarcinoma(331;0.0672)|Lung(427;0.145)		TGTTGGACACCGGTGACTGGTG	0.426000													12	877					0	0	6.4e-05	0	0
SRRM1	10250	broad.mit.edu	37	1	24981531	24981532	+	Missense_Mutation	DNP	CC	AA	AA			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:24981531_24981532CC>AA	uc001bjm.2	+	9	1450_1451	c.1226_1227CC>AA	c.(1225-1227)CCC>CAA	p.P409Q	SRRM1_uc010oel.1_Missense_Mutation_p.P409Q|SRRM1_uc009vrh.1_Missense_Mutation_p.P370Q|SRRM1_uc009vri.1_Missense_Mutation_p.P326Q|SRRM1_uc010oem.1_RNA	NM_005839	NP_005830	Q8IYB3	SRRM1_HUMAN	serine/arginine repetitive matrix 1	409	Pro-rich.|Necessary for speckles and matrix localization.|Arg-rich.|Ser-rich.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nuclear matrix|nuclear speck	DNA binding|protein binding|RNA binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00125)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0422)|OV - Ovarian serous cystadenocarcinoma(117;1.01e-24)|Colorectal(126;5.95e-08)|COAD - Colon adenocarcinoma(152;3.24e-06)|GBM - Glioblastoma multiforme(114;0.000148)|BRCA - Breast invasive adenocarcinoma(304;0.00177)|KIRC - Kidney renal clear cell carcinoma(1967;0.00348)|STAD - Stomach adenocarcinoma(196;0.00483)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.138)		ACTCCACCACCCAAAACTCGGC	0.510000													12	540					0	0	6.4e-05	0	0
RHD	6007	broad.mit.edu	37	1	25633086	25633087	+	Splice_Site	DNP	GG	TT	TT			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:25633086_25633087GG>TT	uc001bjz.2	+	7	998	c.940_splice	c.e7-1	p.G314_splice	RHD_uc010oep.1_Splice_Site_p.G314_splice|RHD_uc001bkc.2_Intron|RHD_uc009vrm.2_Splice_Site_p.G146_splice|RHD_uc001bka.2_Splice_Site_p.G314_splice|RHD_uc001bkb.2_Splice_Site_p.G314_splice|RHD_uc009vrn.2_Intron|RHD_uc009vro.2_Splice_Site_p.G314_splice|RHD_uc009vrp.2_Splice_Site_p.G314_splice|uc001bkd.1_5'Flank	NM_016124	NP_057208	Q02161	RHD_HUMAN	Rh blood group D antigen isoform 1							integral to plasma membrane				breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000245)|all_lung(284;0.000335)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;7.39e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;6.43e-07)|STAD - Stomach adenocarcinoma(196;0.000332)|BRCA - Breast invasive adenocarcinoma(304;0.000438)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.000908)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CTTGTCCACAGGGGTGTTGTAA	0.530000													19	876					0	0	6.4e-05	0	0
TMEM57	55219	broad.mit.edu	37	1	25812258	25812259	+	Missense_Mutation	DNP	CG	AT	AT	rs142677711		TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:25812258_25812259CG>AT	uc001bkk.2	+	8	1670_1671	c.1468_1469CG>AT	c.(1468-1470)CGG>ATG	p.R490M	TMEM57_uc009vru.2_Missense_Mutation_p.R263M|TMEM57_uc009vrv.2_Missense_Mutation_p.R132M	NM_018202	NP_060672	Q8N5G2	MACOI_HUMAN	transmembrane protein 57	490						axon|integral to membrane|neuron projection terminus|nuclear membrane|synapse part					0		Colorectal(325;0.000147)|Renal(390;0.00211)|Lung NSC(340;0.00715)|all_lung(284;0.00989)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0675)|all_neural(195;0.201)		UCEC - Uterine corpus endometrioid carcinoma (279;0.042)|OV - Ovarian serous cystadenocarcinoma(117;1.85e-26)|Colorectal(126;2.99e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|STAD - Stomach adenocarcinoma(196;0.000766)|BRCA - Breast invasive adenocarcinoma(304;0.000986)|GBM - Glioblastoma multiforme(114;0.0191)|READ - Rectum adenocarcinoma(331;0.0649)		CACTGCTGCCCGGGCTGTTGCG	0.450000													19	845					0	0	6.4e-05	0	0
CSMD2	114784	broad.mit.edu	37	1	34033216	34033216	+	Missense_Mutation	SNP	G	A	A			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:34033216G>A	uc001bxn.1	-	54	8317	c.8288C>T	c.(8287-8289)TCG>TTG	p.S2763L	CSMD2_uc001bxm.1_Missense_Mutation_p.S2786L	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2763	Sushi 18.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GGTCTTGCCCGACCAGTGATG	0.522000													46	2					0	0	0.000147903	0	0
KIAA0319L	79932	broad.mit.edu	37	1	35913788	35913788	+	Silent	SNP	C	T	T	rs147017356		TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:35913788C>T	uc001byx.2	-	16	2757	c.2499G>A	c.(2497-2499)CCG>CCA	p.P833P	KIAA0319L_uc001byw.2_Silent_p.P275P|KIAA0319L_uc010ohv.1_Silent_p.P475P	NM_024874	NP_079150	Q8IZA0	K319L_HUMAN	dyslexia susceptibility 2-like	833	Extracellular (Potential).					cytoplasmic vesicle part|integral to membrane	protein binding			skin(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GCTCCGTGTACGGCTGAATCT	0.542000													25	91					0	0	9.22233e-05	0	0
PCSK9	255738	broad.mit.edu	37	1	55505557	55505557	+	Missense_Mutation	SNP	T	C	C			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:55505557T>C	uc001cyf.1	+	1	338	c.47T>C	c.(46-48)CTG>CCG	p.L16P	PCSK9_uc010ool.1_RNA|PCSK9_uc010oom.1_5'Flank	NM_174936	NP_777596	Q8NBP7	PCSK9_HUMAN	proprotein convertase subtilisin/kexin type 9	16					cellular response to insulin stimulus|cellular response to starvation|cholesterol homeostasis|cholesterol metabolic process|kidney development|liver development|low-density lipoprotein particle receptor catabolic process|lysosomal transport|negative regulation of catalytic activity|negative regulation of low-density lipoprotein particle clearance|negative regulation of receptor recycling|neuron differentiation|positive regulation of neuron apoptosis|positive regulation of receptor internalization|protein autoprocessing|regulation of receptor activity	extracellular space|late endosome|lysosome|perinuclear region of cytoplasm	apolipoprotein receptor binding|identical protein binding|low-density lipoprotein particle receptor binding|serine-type endopeptidase activity|very-low-density lipoprotein particle receptor binding			ovary(2)|central_nervous_system(1)|skin(1)	4						ctgccactgctgctgctgctg	0.577000													49	43					0	0	0.000147903	0	0
NBPF7	343505	broad.mit.edu	37	1	120378786	120378787	+	Missense_Mutation	DNP	CG	AT	AT			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:120378786_120378787CG>AT	uc010oxk.1	-	7	1580_1581	c.959_960CG>AT	c.(958-960)CCG>CAT	p.P320H		NM_001047980	NP_001041445	P0C2Y1	NBPF7_HUMAN	hypothetical protein LOC343505	320	NBPF 2.					cytoplasm				ovary(1)|skin(1)	2	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;3.66e-05)|Lung NSC(69;0.000192)|all_epithelial(167;0.0347)		Lung(183;0.0103)|LUSC - Lung squamous cell carcinoma(189;0.0544)		CCCTTTCCTCCGGGGAGTCCTG	0.480000													9	512					0	0	6.4e-05	0	0
PDE4DIP	9659	broad.mit.edu	37	1	144859894	144859894	+	Missense_Mutation	SNP	C	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:144859894C>T	uc001elw.3	-	38	6481	c.6190G>A	c.(6190-6192)GGG>AGG	p.G2064R	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Missense_Mutation_p.G1958R|PDE4DIP_uc001elv.3_Missense_Mutation_p.G1071R	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	2064	Potential.				cellular protein complex assembly	centrosome|Golgi apparatus|myofibril|nucleus	enzyme binding			ovary(4)|haematopoietic_and_lymphoid_tissue(1)	5				Colorectal(2;0.0829)|COAD - Colon adenocarcinoma(2;0.126)		CAATTGTTCCCCTGAATGCTC	0.592000			T	PDGFRB	MPD								19	71					0	0	0.000132079	0	0
SPTA1	6708	broad.mit.edu	37	1	158606503	158606503	+	Silent	SNP	C	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:158606503C>T	uc001fst.1	-	37	5437	c.5238G>A	c.(5236-5238)CAG>CAA	p.Q1746Q		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	1746	Spectrin 17.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)					TCTGAACCCCCTGAAGATCTC	0.438000													25	129					0	0	7.16444e-05	0	0
PAPPA2	60676	broad.mit.edu	37	1	176525708	176525708	+	Missense_Mutation	SNP	G	A	A			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:176525708G>A	uc001gkz.2	+	2	1414	c.250G>A	c.(250-252)GTG>ATG	p.V84M	PAPPA2_uc001gky.1_Missense_Mutation_p.V84M|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	84					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GCCCTACCCCGTGGGGGAGCA	0.562000													58	58					0	0	0.000147903	0	0
CACNA1S	779	broad.mit.edu	37	1	201047108	201047108	+	Silent	SNP	G	A	A			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:201047108G>A	uc001gvv.2	-	11	1745	c.1518C>T	c.(1516-1518)AGC>AGT	p.S506S		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	506	Helical; Name=S3 of repeat II; (Potential).|II.				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	CCAGGATACCGCTACACACCA	0.577000													16	29					0	0	3.45872e-05	0	0
MIA3	375056	broad.mit.edu	37	1	222803530	222803530	+	Missense_Mutation	SNP	G	A	A			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr1:222803530G>A	uc001hnl.2	+	4	2977	c.2968G>A	c.(2968-2970)GCA>ACA	p.A990T	MIA3_uc009xea.1_Missense_Mutation_p.A826T	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	990	Extracellular (Potential).				exocytosis|negative regulation of cell adhesion|negative regulation of cell migration|positive regulation of leukocyte migration|protein transport|wound healing	endoplasmic reticulum membrane|integral to membrane	protein binding			ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(131;0.0199)		TCTGAGCATAGCAGAAAAAAT	0.413000													9	387					0	0	0.000151284	0	0
ZNF239	8187	broad.mit.edu	37	10	44052570	44052570	+	Missense_Mutation	SNP	C	G	G			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr10:44052570C>G	uc001jaw.3	-	2	1611	c.958G>C	c.(958-960)GAG>CAG	p.E320Q	ZNF239_uc001jax.3_Missense_Mutation_p.E320Q|ZNF239_uc009xmj.2_Missense_Mutation_p.E320Q|ZNF239_uc009xmk.2_Missense_Mutation_p.E320Q	NM_005674	NP_005665	Q16600	ZN239_HUMAN	zinc finger protein 239	320	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|RNA binding|zinc ion binding				0						TCCTCACACTCATAGGGCTTC	0.522000													3	47					0	0	6.4e-05	0	0
CNNM1	26507	broad.mit.edu	37	10	101090132	101090132	+	Missense_Mutation	SNP	G	A	A			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr10:101090132G>A	uc001kpp.3	+	1	1277	c.988G>A	c.(988-990)GTG>ATG	p.V330M	CNNM1_uc009xwe.2_Missense_Mutation_p.V330M|CNNM1_uc010qpi.1_Missense_Mutation_p.V330M|CNNM1_uc009xwf.2_Missense_Mutation_p.V330M	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	330	Helical; (Potential).|DUF21.				ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)		GCCGGCGCTCGTGTGCACCGG	0.697000													4	2					0	0	0.00024832	0	0
DNMBP	23268	broad.mit.edu	37	10	101716647	101716647	+	Missense_Mutation	SNP	G	A	A			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr10:101716647G>A	uc001kqj.2	-	4	676	c.584C>T	c.(583-585)CCA>CTA	p.P195L	NCRNA00093_uc001kqk.1_RNA	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	195	SH3 3.				intracellular signal transduction|regulation of Rho protein signal transduction	cell junction|cytoskeleton|Golgi stack|synapse	protein binding|Rho guanyl-nucleotide exchange factor activity			ovary(5)|skin(1)	6		Colorectal(252;0.234)		Epithelial(162;2.94e-10)|all cancers(201;3.15e-08)		AAAACCTTCTGGAAAAATGCC	0.483000													24	42					0	0	9.22233e-05	0	0
CTR9	9646	broad.mit.edu	37	11	10791757	10791757	+	Missense_Mutation	SNP	T	G	G			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr11:10791757T>G	uc001mja.2	+	17	2259	c.2110T>G	c.(2110-2112)TAT>GAT	p.Y704D		NM_014633	NP_055448	Q6PD62	CTR9_HUMAN	SH2 domain binding protein 1	704	TPR 15.				histone H2B ubiquitination|histone monoubiquitination	Cdc73/Paf1 complex|nuclear speck				ovary(2)	2				all cancers(16;1.64e-07)|Epithelial(150;2.47e-07)|BRCA - Breast invasive adenocarcinoma(625;0.111)		TTTACTGTAGTATGAAAACTG	0.348000													16	16					0	0	5.01169e-05	0	0
PTPRJ	5795	broad.mit.edu	37	11	48145321	48145321	+	Missense_Mutation	SNP	A	G	G			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr11:48145321A>G	uc001ngp.3	+	5	1128	c.773A>G	c.(772-774)AAT>AGT	p.N258S	PTPRJ_uc001ngo.3_Missense_Mutation_p.N258S	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	258	Extracellular (Potential).|Fibronectin type-III 2.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						CTTCAGGTCAATATCTCGGGC	0.502000													26	32					0	0	9.22233e-05	0	0
PTPRJ	5795	broad.mit.edu	37	11	48177618	48177618	+	Nonsense_Mutation	SNP	G	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr11:48177618G>T	uc001ngp.3	+	21	3740	c.3385G>T	c.(3385-3387)GAG>TAG	p.E1129*		NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	1129	Tyrosine-protein phosphatase.|Cytoplasmic (Potential).				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						TATGGTTTGGGAGAAAAATGT	0.318000													46	64					6.31075e-24	2.60261e-22	0.000147903	1	0
OR4C13	283092	broad.mit.edu	37	11	49974394	49974394	+	Missense_Mutation	SNP	C	A	A			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr11:49974394C>A	uc010rhz.1	+	1	420	c.420C>A	c.(418-420)AGC>AGA	p.S140R		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						ATGTTTGTAGCCTGCTAGTGG	0.468000													28	44					3.1745e-13	1.26352e-11	0.000227799	1	0
CAPN5	726	broad.mit.edu	37	11	76834836	76834836	+	Nonsense_Mutation	SNP	C	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr11:76834836C>T	uc001oxx.2	+	13	2028	c.1843C>T	c.(1843-1845)CGA>TGA	p.R615*	CAPN5_uc009yup.2_Nonsense_Mutation_p.R655*|CAPN5_uc009yuq.2_Nonsense_Mutation_p.R651*|CAPN5_uc001oxy.2_Nonsense_Mutation_p.R655*|CAPN5_uc001oya.2_Nonsense_Mutation_p.R177*	NM_004055	NP_004046	O15484	CAN5_HUMAN	calpain 5	615	C2.				proteolysis|signal transduction	intracellular	calcium-dependent cysteine-type endopeptidase activity				0						CCTCCGGGACCGAAATAGCCG	0.622000													33	27					0	0	4.66903e-05	0	0
FZD4	8322	broad.mit.edu	37	11	86662335	86662335	+	Missense_Mutation	SNP	C	T	T	rs80358298		TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr11:86662335C>T	uc001pce.2	-	2	1769	c.1463G>A	c.(1462-1464)GGC>GAC	p.G488D	PRSS23_uc001pcc.1_RNA	NM_012193	NP_036325	Q9ULV1	FZD4_HUMAN	frizzled 4 precursor	488	Helical; Name=7; (Potential).		G -> D (in EVR1).		canonical Wnt receptor signaling pathway|cellular response to retinoic acid|embryo development|negative regulation of cell-substrate adhesion|neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|progesterone secretion|regulation of vascular endothelial growth factor receptor signaling pathway|substrate adhesion-dependent cell spreading|vasculogenesis|Wnt receptor signaling pathway, calcium modulating pathway	cell projection|cell surface|cytoplasm	cytokine binding|G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			large_intestine(1)	1		Acute lymphoblastic leukemia(157;2.31e-05)|all_hematologic(158;0.00824)				TGAAGTGATGCCCACCAACAA	0.403000													24	33					0	0	3.10358e-05	0	0
FAT3	120114	broad.mit.edu	37	11	92085293	92085294	+	Nonsense_Mutation	DNP	GG	TT	TT			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr11:92085293_92085294GG>TT	uc001pdj.3	+	1	32_33	c.15_16GG>TT	c.(13-18)ATGGGA>ATTTGA	p.5_6MG>I*		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	5_6					homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ATATAATTATGGGACACTGTGT	0.500000										TCGA Ovarian(4;0.039)			9	476					0	0	6.4e-05	0	0
FAT3	120114	broad.mit.edu	37	11	92624149	92624150	+	Missense_Mutation	DNP	CG	AT	AT			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr11:92624149_92624150CG>AT	uc001pdj.3	+	25	13561_13562	c.13544_13545CG>AT	c.(13543-13545)TCG>TAT	p.S4515Y	FAT3_uc001pdi.3_Missense_Mutation_p.S987Y	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	4547	Cytoplasmic (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ACCTCATCCTCGGATGTGTCTG	0.554000										TCGA Ovarian(4;0.039)			8	544					0	0	6.4e-05	0	0
CD163L1	283316	broad.mit.edu	37	12	7531757	7531757	+	Missense_Mutation	SNP	G	T	T	rs147841364		TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr12:7531757G>T	uc001qsy.2	-	9	2214	c.2188C>A	c.(2188-2190)CAA>AAA	p.Q730K	CD163L1_uc010sge.1_Missense_Mutation_p.Q740K	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	730	SRCR 7.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						CATTCAAGTTGCCTGCAAACA	0.488000													23	47					3.01185e-09	1.18501e-07	7.16444e-05	1	0
MDM2	4193	broad.mit.edu	37	12	69233400	69233401	+	Missense_Mutation	DNP	GG	TT	TT			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr12:69233400_69233401GG>TT	uc001sui.2	+	11	1552_1553	c.1265_1266GG>TT	c.(1264-1266)AGG>ATT	p.R422I	MDM2_uc009zri.2_Missense_Mutation_p.R377I|MDM2_uc009zqx.2_Missense_Mutation_p.R367I|MDM2_uc009zqw.2_Intron|MDM2_uc001suk.2_Intron|MDM2_uc001sun.3_Missense_Mutation_p.R241I|MDM2_uc009zqz.2_Missense_Mutation_p.R369I|MDM2_uc009zra.2_Missense_Mutation_p.R220I|MDM2_uc001sum.1_Missense_Mutation_p.R50I|MDM2_uc009zrd.2_Missense_Mutation_p.R106I|MDM2_uc009zrc.2_Missense_Mutation_p.R106I|MDM2_uc009zre.2_Missense_Mutation_p.R163I|MDM2_uc009zrf.2_Missense_Mutation_p.R106I|MDM2_uc001suo.2_Missense_Mutation_p.R216I|MDM2_uc009zrg.2_Missense_Mutation_p.R138I|MDM2_uc009zrh.2_Missense_Mutation_p.R190I	NM_002392	NP_002383	Q00987	MDM2_HUMAN	mouse double minute 2 homolog isoform MDM2	416	Necessary for interaction with USP2.				cellular response to hypoxia|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|establishment of protein localization|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of cell proliferation|positive regulation of mitotic cell cycle|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein complex assembly|protein destabilization|protein localization to nucleus|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to antibiotic|synaptic transmission	cytosol|endocytic vesicle membrane|insoluble fraction|nucleolus|nucleoplasm|plasma membrane|protein complex	enzyme binding|identical protein binding|p53 binding|ubiquitin-protein ligase activity|zinc ion binding			lung(2)|central_nervous_system(1)	3	all_cancers(1;8.46e-121)|all_epithelial(5;3.21e-36)|Lung NSC(4;2.16e-33)|all_lung(4;3.03e-31)|Glioma(1;1.9e-09)|Breast(13;1.59e-06)|all_neural(1;1.03e-05)|Melanoma(1;0.0171)|Renal(347;0.0684)		all cancers(2;8.67e-65)|GBM - Glioblastoma multiforme(2;8.89e-62)|BRCA - Breast invasive adenocarcinoma(5;2.43e-08)|Lung(24;1.5e-05)|LUAD - Lung adenocarcinoma(15;8.5e-05)|STAD - Stomach adenocarcinoma(21;0.00372)|Kidney(9;0.143)			GAGTTTGAAAGGGAAGAAACCC	0.396000			A		sarcoma|glioma|colorectal|other								15	947					0	0	6.4e-05	0	0
CPM	1368	broad.mit.edu	37	12	69263269	69263270	+	Missense_Mutation	DNP	CC	AA	AA			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr12:69263269_69263270CC>AA	uc001sup.2	-	6	683_684	c.622_623GG>TT	c.(622-624)GGG>TTG	p.G208L	CPM_uc001sur.2_Missense_Mutation_p.G208L|CPM_uc001suq.2_Missense_Mutation_p.G208L	NM_198320	NP_938079	P14384	CBPM_HUMAN	carboxypeptidase M precursor	208					anatomical structure morphogenesis|proteolysis	anchored to membrane|cytoplasm|nucleus|plasma membrane	metallocarboxypeptidase activity|zinc ion binding				0	all_epithelial(5;1.09e-35)|Lung NSC(4;1.47e-33)|all_lung(4;1.02e-31)|Breast(13;1.59e-06)		all cancers(2;2.69e-50)|GBM - Glioblastoma multiforme(2;7.34e-41)|BRCA - Breast invasive adenocarcinoma(5;5.38e-10)|Lung(24;4.61e-05)|LUAD - Lung adenocarcinoma(15;0.000376)|STAD - Stomach adenocarcinoma(21;0.00372)|Kidney(9;0.143)			GTATAATGCCCCAGTTGCTGCA	0.396000													14	899					0	0	6.4e-05	0	0
FRS2	10818	broad.mit.edu	37	12	69962850	69962851	+	Missense_Mutation	DNP	CC	AA	AA			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr12:69962850_69962851CC>AA	uc001suy.2	+	6	550_551	c.40_41CC>AA	c.(40-42)CCA>AAA	p.P14K	FRS2_uc001suz.2_Missense_Mutation_p.P14K|FRS2_uc009zrj.2_Missense_Mutation_p.P14K|FRS2_uc009zrk.2_Missense_Mutation_p.P14K	NM_006654	NP_006645	Q8WU20	FRS2_HUMAN	fibroblast growth factor receptor substrate 2	14	IRS-type PTB.				activation of MAPKK activity|activation of phospholipase C activity|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|transmembrane receptor protein tyrosine phosphatase signaling pathway	endomembrane system|endosome|integral to plasma membrane|membrane fraction	fibroblast growth factor receptor binding|insulin receptor binding|phosphatase activator activity|transmembrane receptor protein tyrosine kinase adaptor activity			prostate(1)|kidney(1)	2	Breast(13;2.15e-06)|Esophageal squamous(21;0.187)		Epithelial(6;2.94e-18)|Lung(24;9.68e-05)|OV - Ovarian serous cystadenocarcinoma(12;0.000984)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.0151)|Kidney(9;0.143)|LUSC - Lung squamous cell carcinoma(43;0.24)			AGACACTGTCCCAGATAACCAT	0.356000													15	772					0	0	6.4e-05	0	0
RAB3IP	117177	broad.mit.edu	37	12	70194035	70194036	+	Missense_Mutation	DNP	CC	AA	AA			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr12:70194035_70194036CC>AA	uc001svp.2	+	7	1430_1431	c.983_984CC>AA	c.(982-984)CCC>CAA	p.P328Q	RAB3IP_uc001svm.2_Missense_Mutation_p.P312Q|RAB3IP_uc001svn.2_Missense_Mutation_p.P312Q|RAB3IP_uc001svo.2_Intron|RAB3IP_uc001svq.2_Missense_Mutation_p.P328Q|RAB3IP_uc001svr.2_RNA|RAB3IP_uc001svs.2_Intron|RAB3IP_uc001svt.2_Missense_Mutation_p.P106Q	NM_175623	NP_783322	Q96QF0	RAB3I_HUMAN	RAB3A interacting protein isoform alpha 2	328					cilium assembly|Golgi to plasma membrane transport|protein localization to organelle|protein transport	actin cortical patch|centrosome|cytosol|lamellipodium|microtubule basal body|nucleus	guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1	Esophageal squamous(21;0.187)		Lung(24;0.000381)|OV - Ovarian serous cystadenocarcinoma(12;0.00168)|STAD - Stomach adenocarcinoma(21;0.00694)			AAGGATGAGCCCACAATGGACA	0.327000													12	907					0	0	6.4e-05	0	0
CNOT2	4848	broad.mit.edu	37	12	70671979	70671980	+	Translation_Start_Site	DNP	CG	AT	AT			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr12:70671979_70671980CG>AT	uc001svv.2	+	2	552_553	c.-27_-26CG>AT	c.(-29--24)TCCGGT>TCATGT		CNOT2_uc009zro.2_Translation_Start_Site|CNOT2_uc009zrp.2_Translation_Start_Site|CNOT2_uc009zrq.2_Translation_Start_Site	NM_014515	NP_055330	Q9NZN8	CNOT2_HUMAN	CCR4-NOT transcription complex, subunit 2						nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	protein binding|RNA polymerase II transcription cofactor activity				0	Renal(347;0.236)		GBM - Glioblastoma multiforme(1;4.77e-09)|Lung(24;0.000636)|OV - Ovarian serous cystadenocarcinoma(12;0.00243)|STAD - Stomach adenocarcinoma(21;0.0118)			TGATTGCCTCCGGTACTGTGAG	0.450000													15	807					0	0	6.4e-05	0	0
LGR5	8549	broad.mit.edu	37	12	71974057	71974058	+	Splice_Site	DNP	GG	TT	TT			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr12:71974057_71974058GG>TT	uc001swl.2	+	16	1455	c.1407_splice	c.e16-1	p.K469_splice	LGR5_uc001swm.2_Splice_Site_p.K445_splice|LGR5_uc001swn.1_Splice_Site	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled							integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						TTCATTTAAAGGGTTATAGAAA	0.332000													14	953					0	0	6.4e-05	0	0
LGR5	8549	broad.mit.edu	37	12	71976316	71976317	+	Missense_Mutation	DNP	CC	AA	AA			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr12:71976316_71976317CC>AA	uc001swl.2	+	17	1681_1682	c.1633_1634CC>AA	c.(1633-1635)CCA>AAA	p.P545K	LGR5_uc001swm.2_Missense_Mutation_p.P521K|LGR5_uc001swn.1_RNA	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	545	Extracellular (Potential).					integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						TTCACCTTCCCCAGGTGAGAAA	0.450000													23	931					0	0	6.4e-05	0	0
LGR5	8549	broad.mit.edu	37	12	71977942	71977943	+	Missense_Mutation	DNP	GG	TT	TT			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr12:71977942_71977943GG>TT	uc001swl.2	+	18	2200_2201	c.2152_2153GG>TT	c.(2152-2154)GGG>TTG	p.G718L	LGR5_uc001swm.2_Missense_Mutation_p.G694L|LGR5_uc001swn.1_Intron	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	718	Extracellular (Potential).					integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						TTTGCCTTTTGGGGAGCCCAGC	0.564000													15	961					0	0	6.4e-05	0	0
TMEM19	55266	broad.mit.edu	37	12	72091240	72091240	+	Missense_Mutation	SNP	G	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr12:72091240G>T	uc001sws.2	+	4	1146	c.563G>T	c.(562-564)TGG>TTG	p.W188L	TMEM19_uc001swr.1_Missense_Mutation_p.W174L|TMEM19_uc009zru.1_RNA	NM_018279	NP_060749	Q96HH6	TMM19_HUMAN	transmembrane protein 19	188						integral to membrane					0		Breast(359;0.0889)		GBM - Glioblastoma multiforme(134;0.044)		GGAGACACATGGGCTTCAGAA	0.498000													14	948					3.86212e-05	0.00146889	3.86212e-05	1	0
TBC1D15	64786	broad.mit.edu	37	12	72307690	72307690	+	Missense_Mutation	SNP	C	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr12:72307690C>T	uc001swu.2	+	13	1511	c.1502C>T	c.(1501-1503)TCT>TTT	p.S501F	TBC1D15_uc010stt.1_Missense_Mutation_p.S470F|TBC1D15_uc001swv.2_Missense_Mutation_p.S484F|TBC1D15_uc001sww.2_Missense_Mutation_p.S233F	NM_022771	NP_073608	Q8TC07	TBC15_HUMAN	TBC1 domain family, member 15 isoform 1	479	Rab-GAP TBC.						protein binding|Rab GTPase activator activity				0						TGCTTTGCCTCTTACATGGAC	0.294000													470	430					0	0	0.000147903	0	0
TBC1D15	64786	broad.mit.edu	37	12	72307701	72307701	+	Nonsense_Mutation	SNP	C	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr12:72307701C>T	uc001swu.2	+	13	1522	c.1513C>T	c.(1513-1515)CAA>TAA	p.Q505*	TBC1D15_uc010stt.1_Nonsense_Mutation_p.Q474*|TBC1D15_uc001swv.2_Nonsense_Mutation_p.Q488*|TBC1D15_uc001sww.2_Nonsense_Mutation_p.Q237*	NM_022771	NP_073608	Q8TC07	TBC15_HUMAN	TBC1 domain family, member 15 isoform 1	483	Rab-GAP TBC.						protein binding|Rab GTPase activator activity				0						TTACATGGACCAAATGGTAAG	0.308000													485	418					0	0	0.000147903	0	0
TPH2	121278	broad.mit.edu	37	12	72425348	72425349	+	Missense_Mutation	DNP	CC	AA	AA			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr12:72425348_72425349CC>AA	uc009zrw.1	+	11	1487_1488	c.1346_1347CC>AA	c.(1345-1347)CCC>CAA	p.P449Q	TPH2_uc001swy.2_Missense_Mutation_p.P359Q	NM_173353	NP_775489	Q8IWU9	TPH2_HUMAN	tryptophan hydroxylase 2	449					aromatic amino acid family metabolic process|hormone biosynthetic process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity			ovary(2)|central_nervous_system(1)|skin(1)	4					L-Tryptophan(DB00150)	TACTTCAATCCCTACACACAGA	0.416000													21	951					0	0	6.4e-05	0	0
SSTR1	6751	broad.mit.edu	37	14	38679353	38679353	+	Silent	SNP	G	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr14:38679353G>T	uc001wul.1	+	3	1376	c.759G>T	c.(757-759)GTG>GTT	p.V253V	SSTR1_uc010amu.1_Intron	NM_001049	NP_001040	P30872	SSR1_HUMAN	somatostatin receptor 1	253	Cytoplasmic (Potential).				digestion|G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation|response to nutrient	integral to plasma membrane	somatostatin receptor activity			central_nervous_system(3)|ovary(1)|lung(1)	5	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;0.00444)	Octreotide(DB00104)	TGCGCATGGTGGCCCTCAAGG	0.567000													20	29					3.99206e-14	1.62676e-12	9.7654e-05	1	0
PRKCH	5583	broad.mit.edu	37	14	61788891	61788891	+	Silent	SNP	C	G	G			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr14:61788891C>G	uc001xfn.2	+	1	377	c.72C>G	c.(70-72)CCC>CCG	p.P24P	PRKCH_uc010tsa.1_Intron|uc001xfm.2_Intron	NM_006255	NP_006246	P24723	KPCL_HUMAN	protein kinase C, eta	24	C2.				intracellular signal transduction|platelet activation	cytosol|plasma membrane	ATP binding|enzyme binding|metal ion binding|protein kinase C activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|lung(1)|large_intestine(1)|skin(1)	6				OV - Ovarian serous cystadenocarcinoma(108;0.045)|BRCA - Breast invasive adenocarcinoma(234;0.0906)|KIRC - Kidney renal clear cell carcinoma(182;0.182)		GGCTGCAGCCCACCCGCTGGT	0.542000													3	7					0	0	6.4e-05	0	0
ISM2	145501	broad.mit.edu	37	14	77950804	77950804	+	Silent	SNP	A	C	C			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr14:77950804A>C	uc001xtz.2	-	3	563	c.489T>G	c.(487-489)ACT>ACG	p.T163T	ISM2_uc001xua.2_Silent_p.T163T|ISM2_uc001xty.2_Silent_p.T75T|ISM2_uc010tvl.1_Intron	NM_199296	NP_954993	Q6H9L7	ISM2_HUMAN	isthmin 2 homolog isoform 1	163						extracellular region				skin(1)	1						GCTCAGTGACAGTCCAACATC	0.617000													25	28					0	0	0.000117367	0	0
CIITA	4261	broad.mit.edu	37	16	11009480	11009480	+	Missense_Mutation	SNP	C	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr16:11009480C>T	uc002dai.3	+	14	3075	c.2942C>T	c.(2941-2943)ACG>ATG	p.T981M	CIITA_uc002daj.3_Missense_Mutation_p.T982M|CIITA_uc002dak.3_Missense_Mutation_p.T397M	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	981			Missing (in BLS2).		interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						CGGATCCTCACGGCCTTTTCC	0.478000			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								19	31					0	0	0.000229342	0	0
RRN3P1	730092	broad.mit.edu	37	16	21817457	21817457	+	Silent	SNP	G	A	A	rs150520281	by1000genomes	TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr16:21817457G>A	uc010vbl.1	-	7	603	c.106C>T	c.(106-108)CTG>TTG	p.L36L	uc002diq.3_Intron	NR_003370				SubName: Full=Putative uncharacterized protein ENSP00000219758;												0						CTTACATCCAGCTTGAGTAGT	0.254000													4	37					0	0	1.23904e-05	0	0
FBXO39	162517	broad.mit.edu	37	17	6683324	6683324	+	Nonsense_Mutation	SNP	G	A	A			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr17:6683324G>A	uc010vtg.1	+	2	257	c.137G>A	c.(136-138)TGG>TAG	p.W46*		NM_153230	NP_694962	Q8N4B4	FBX39_HUMAN	F-box protein 39	46	F-box.									ovary(1)|skin(1)	2						TGCAGAAAGTGGAACCAGATG	0.542000													18	18					0	0	7.07596e-05	0	0
KRTAP4-7	100132476	broad.mit.edu	37	17	39240627	39240627	+	Missense_Mutation	SNP	T	C	C	rs139671425	by1000genomes	TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr17:39240627T>C	uc010wfn.1	+	1	169	c.169T>C	c.(169-171)TCT>CCT	p.S57P		NM_033061	NP_149050			keratin associated protein 4-7												0						GTGCTGCCAGTCTGTGTGCTG	0.493000													3	52					0	0	2.17888e-05	0	0
VEZF1	7716	broad.mit.edu	37	17	56056541	56056542	+	Missense_Mutation	DNP	CC	AA	AA			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr17:56056541_56056542CC>AA	uc002ivf.1	-	5	1252_1253	c.1109_1110GG>TT	c.(1108-1110)TGG>TTT	p.W370F	VEZF1_uc010dcn.1_Missense_Mutation_p.W220F	NM_007146	NP_009077	Q14119	VEZF1_HUMAN	zinc finger protein 161	370					cellular defense response|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2						CAGCTTCTTCCCACAGTCTCAG	0.312000													10	385					0	0	6.4e-05	0	0
ZNF845	91664	broad.mit.edu	37	19	53856761	53856761	+	Missense_Mutation	SNP	T	C	C			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr19:53856761T>C	uc010ydv.1	+	4	2950	c.2833T>C	c.(2833-2835)TGT>CGT	p.C945R	ZNF845_uc010ydw.1_Missense_Mutation_p.C945R	NM_138374	NP_612383	Q96IR2	ZN845_HUMAN	zinc finger protein 845	945	C2H2-type 27.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						ACCTTACAAGTGTAATGAATG	0.348000													3	34					0	0	6.4e-05	0	0
APOB	338	broad.mit.edu	37	2	21237341	21237342	+	Missense_Mutation	DNP	GG	TT	TT			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr2:21237341_21237342GG>TT	uc002red.2	-	24	3948_3949	c.3820_3821CC>AA	c.(3820-3822)CCA>AAA	p.P1274K		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1274					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GAGGTTTTCTGGGATGTGGAAG	0.411000													13	398					0	0	6.4e-05	0	0
RPL23AP32	56969	broad.mit.edu	37	2	54756736	54756737	+	Missense_Mutation	DNP	TT	CC	CC			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr2:54756736_54756737TT>CC	uc010yot.1	+	1	378_379	c.254_255TT>CC	c.(253-255)TTT>TCC	p.F85S	SPTBN1_uc002rxu.2_Intron|SPTBN1_uc002rxv.1_Intron	NR_002229				SubName: Full=Putative uncharacterized protein DKFZp547I014;												0						ACCACTGAGTTTGCCATGAAGA	0.480000													4	36					0	0	6.4e-05	0	0
BCL11A	53335	broad.mit.edu	37	2	60687857	60687858	+	Missense_Mutation	DNP	CG	AT	AT			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr2:60687857_60687858CG>AT	uc002sae.1	-	4	2417_2418	c.2189_2190CG>AT	c.(2188-2190)CCG>CAT	p.P730H	BCL11A_uc002sab.2_Missense_Mutation_p.P730H|BCL11A_uc002sac.2_Intron|BCL11A_uc010ypi.1_Missense_Mutation_p.P399H|BCL11A_uc010ypj.1_Missense_Mutation_p.P696H|BCL11A_uc002sad.1_Missense_Mutation_p.P578H|BCL11A_uc002saf.1_Missense_Mutation_p.P696H	NM_022893	NP_075044	Q9H165	BC11A_HUMAN	B-cell CLL/lymphoma 11A isoform 1	730				P -> T (in Ref. 2; CAC17723/CAC17724).	negative regulation of axon extension|negative regulation of collateral sprouting|negative regulation of dendrite development|positive regulation of collateral sprouting|positive regulation of neuron projection development|positive regulation of transcription from RNA polymerase II promoter|protein sumoylation|regulation of dendrite development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|cytoplasm|nucleus|nucleus	nucleic acid binding|protein heterodimerization activity|protein homodimerization activity|zinc ion binding			central_nervous_system(6)|breast(3)|ovary(2)|skin(2)	13			LUSC - Lung squamous cell carcinoma(5;9.29e-08)|Lung(5;1.34e-06)|Epithelial(17;0.0562)|all cancers(80;0.199)			TGGGCCTGCCCGGGCCCGGACC	0.624000			T	IGH@	B-CLL								7	248					0	0	6.4e-05	0	0
FIGLA	344018	broad.mit.edu	37	2	71012684	71012684	+	Nonsense_Mutation	SNP	G	A	A			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr2:71012684G>A	uc002she.1	-	3	477	c.472C>T	c.(472-474)CAA>TAA	p.Q158*		NM_001004311	NP_001004311	Q6QHK4	FIGLA_HUMAN	factor in the germline alpha	158					multicellular organismal development|oocyte development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	transcription factor complex	DNA binding|transcription factor binding				0						CTGATATGTTGGGTGATGTTT	0.488000													82	207					0	0	0.000147903	0	0
LBX2	85474	broad.mit.edu	37	2	74729892	74729892	+	Missense_Mutation	SNP	G	A	A	rs149381878		TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr2:74729892G>A	uc002slw.2	-	1	552	c.95C>T	c.(94-96)TCC>TTC	p.S32F	LOC151534_uc002slx.2_RNA	NM_001009812	NP_001009812	Q6XYB7	LBX2_HUMAN	ladybird homeobox 2	30						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TGCGGGCCGGGAAGCAGCCAG	0.627000													20	37					0	0	0.000229342	0	0
NBEAL1	65065	broad.mit.edu	37	2	203972604	203972604	+	Missense_Mutation	SNP	G	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr2:203972604G>T	uc002uzt.3	+	13	1888	c.1555G>T	c.(1555-1557)GGG>TGG	p.G519W		NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3	519							binding			ovary(1)|skin(1)	2						TGGTTCCTTGGGGAGTCAGTC	0.463000													10	426					6.40141e-05	0.00240792	6.40141e-05	1	0
PASK	23178	broad.mit.edu	37	2	242063523	242063523	+	Silent	SNP	C	A	A			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr2:242063523C>A	uc002wao.1	-	11	2837	c.2745G>T	c.(2743-2745)GTG>GTT	p.V915V	PASK_uc010zol.1_Silent_p.V729V|PASK_uc010zom.1_Silent_p.V880V|PASK_uc010fzl.1_Silent_p.V915V|PASK_uc010zon.1_Silent_p.V696V|PASK_uc002wap.2_Silent_p.V458V|PASK_uc002waq.2_Silent_p.V915V	NM_015148	NP_055963	Q96RG2	PASK_HUMAN	PAS domain containing serine/threonine kinase	915					regulation of transcription, DNA-dependent	Golgi apparatus	ATP binding|identical protein binding|protein serine/threonine kinase activity|signal transducer activity			ovary(4)|lung(1)|skin(1)	6		all_cancers(19;4.46e-39)|all_epithelial(40;1.34e-17)|Breast(86;1.53e-05)|Renal(207;0.00179)|all_lung(227;0.00481)|Lung NSC(271;0.017)|Ovarian(221;0.0228)|Esophageal squamous(248;0.129)|all_hematologic(139;0.158)|Melanoma(123;0.16)|all_neural(83;0.243)|Hepatocellular(293;0.244)		Epithelial(32;1.34e-31)|all cancers(36;1e-28)|OV - Ovarian serous cystadenocarcinoma(60;3.53e-14)|Kidney(56;4.31e-09)|KIRC - Kidney renal clear cell carcinoma(57;4.35e-08)|BRCA - Breast invasive adenocarcinoma(100;5.64e-06)|Lung(119;0.000596)|LUSC - Lung squamous cell carcinoma(224;0.00481)|Colorectal(34;0.014)|COAD - Colon adenocarcinoma(134;0.0968)		CCTGGAGCTCCACCCGCCTCA	0.587000													4	7					3.59834e-05	0.00138394	3.59834e-05	1	0
FRG1B	284802	broad.mit.edu	37	20	29628263	29628263	+	Missense_Mutation	SNP	A	G	G			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr20:29628263A>G	uc010ztl.1	+	3	207	c.175A>G	c.(175-177)ATT>GTT	p.I59V	FRG1B_uc002wvm.1_RNA|FRG1B_uc010ztj.1_RNA|FRG1B_uc010gdr.1_RNA|FRG1B_uc010ztk.1_Missense_Mutation_p.I11V					Homo sapiens cDNA FLJ32537 fis, clone SMINT2000400, highly similar to Homo sapiens FRG1 mRNA.												0						TAGCTGCTTTATTAGATGCAA	0.363000													26	101					0	0	5.1965e-05	0	0
ZNF341	84905	broad.mit.edu	37	20	32341106	32341106	+	Silent	SNP	C	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr20:32341106C>T	uc002wzy.2	+	5	638	c.618C>T	c.(616-618)CCC>CCT	p.P206P	ZNF341_uc002wzx.2_Silent_p.P206P|ZNF341_uc010geq.2_Silent_p.P116P|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	206					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						GCCTGGGCCCCCCTGGGCGTC	0.443000													11	7					0	0	3.86212e-05	0	0
ARFGEF2	10564	broad.mit.edu	37	20	47614759	47614759	+	Missense_Mutation	SNP	G	A	A			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr20:47614759G>A	uc002xtx.3	+	24	3403	c.3251G>A	c.(3250-3252)GGA>GAA	p.G1084E	ARFGEF2_uc010zyf.1_Missense_Mutation_p.G377E	NM_006420	NP_006411	Q9Y6D5	BIG2_HUMAN	ADP-ribosylation factor guanine	1084					exocytosis|intracellular signal transduction|regulation of ARF protein signal transduction	cytosol|Golgi membrane	ARF guanyl-nucleotide exchange factor activity			breast(3)|upper_aerodigestive_tract(1)	4			BRCA - Breast invasive adenocarcinoma(12;0.00148)|Colorectal(8;0.198)			AGACTGGATGGAAATGCAATA	0.338000													16	18					0	0	0.000132079	0	0
SON	6651	broad.mit.edu	37	21	34924690	34924690	+	Silent	SNP	C	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr21:34924690C>T	uc002yse.1	+	3	3202	c.3153C>T	c.(3151-3153)TCC>TCT	p.S1051S	SON_uc002ysb.1_Silent_p.S1051S|SON_uc002ysc.2_Silent_p.S1051S|SON_uc002ysd.2_Silent_p.S42S|SON_uc002ysf.1_Intron|SON_uc002ysg.2_Silent_p.S42S	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	1051	1-6.|14 X 6 AA repeats of [ED]-R-S-M-M-S.				anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						CTATGATGTCCCCTATGGCTG	0.498000													6	104					0	0	3.59834e-05	0	0
KCNJ15	3772	broad.mit.edu	37	21	39671704	39671704	+	Missense_Mutation	SNP	G	A	A			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr21:39671704G>A	uc002ywv.2	+	4	823	c.521G>A	c.(520-522)CGG>CAG	p.R174Q	KCNJ15_uc002yww.2_Missense_Mutation_p.R174Q|KCNJ15_uc002ywx.2_Missense_Mutation_p.R174Q	NM_002243	NP_002234	Q99712	IRK15_HUMAN	potassium inwardly-rectifying channel J15	174	Cytoplasmic (By similarity).				synaptic transmission	integral to plasma membrane	inward rectifier potassium channel activity			ovary(2)|skin(2)|breast(1)|central_nervous_system(1)	6						CCCAAAAAGCGGGCTGAGACC	0.507000													48	3					0	0	0.000106405	0	0
ZNF589	51385	broad.mit.edu	37	3	48309500	48309500	+	Missense_Mutation	SNP	A	G	G			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr3:48309500A>G	uc003csl.3	+	4	385	c.319A>G	c.(319-321)ATT>GTT	p.I107V	ZNF589_uc010hjt.1_Missense_Mutation_p.I104V|ZNF589_uc003csn.2_RNA|ZNF589_uc011bbg.1_Missense_Mutation_p.I106V|ZNF589_uc003csm.2_Intron	NM_016089	NP_057173	Q86UQ0	ZN589_HUMAN	zinc finger protein 589	107	KRAB.				regulation of transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000649)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		CAATCATCCTATTCCAGGTTT	0.507000													15	36					0	0	3.45872e-05	0	0
EPHB1	2047	broad.mit.edu	37	3	134880946	134880946	+	Silent	SNP	G	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr3:134880946G>T	uc003eqt.2	+	7	1729	c.1509G>T	c.(1507-1509)GTG>GTT	p.V503V	EPHB1_uc003equ.2_Silent_p.V64V	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	503	Fibronectin type-III 2.|Extracellular (Potential).					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						TGGTATATGTGGTACAGGTGC	0.552000													40	12					1.03484e-13	4.16735e-12	0.000191422	1	0
FGFR3	2261	broad.mit.edu	37	4	1803642	1803642	+	Missense_Mutation	SNP	C	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr4:1803642C>T	uc003gdr.3	+	7	1076	c.820C>T	c.(820-822)CAC>TAC	p.H274Y	FGFR3_uc003gdu.2_Missense_Mutation_p.H274Y|FGFR3_uc003gds.3_Missense_Mutation_p.H274Y|FGFR3_uc003gdq.3_Missense_Mutation_p.H274Y|FGFR3_uc010icb.1_Missense_Mutation_p.H116Y|FGFR3_uc003gdt.1_Missense_Mutation_p.H116Y	NM_000142	NP_000133	P22607	FGFR3_HUMAN	fibroblast growth factor receptor 3 isoform 1	274	Ig-like C2-type 3.|Extracellular (Potential).				bone maturation|cell growth|insulin receptor signaling pathway|JAK-STAT cascade|MAPKKK cascade|negative regulation of developmental growth|positive regulation of cell proliferation	integral to plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|identical protein binding			urinary_tract(2177)|skin(314)|upper_aerodigestive_tract(57)|haematopoietic_and_lymphoid_tissue(24)|prostate(9)|cervix(6)|central_nervous_system(4)|large_intestine(3)|lung(3)|testis(2)|pancreas(1)	2600		Breast(71;0.212)|all_epithelial(65;0.241)	all cancers(2;0.000145)|OV - Ovarian serous cystadenocarcinoma(23;0.0019)|Epithelial(3;0.00221)|GBM - Glioblastoma multiforme(2;0.234)		Palifermin(DB00039)	CGTGGAGTTCCACTGCAAGGT	0.672000		1	Mis|T	IGH@|ETV6	bladder|MM|T-cell lymphoma		Hypochondroplasia|Thanatophoric dysplasia		Muenke_syndrome|Saethre-Chotzen_syndrome				143	173					0	0	0.000147903	0	0
LETM1	3954	broad.mit.edu	37	4	1825447	1825448	+	Missense_Mutation	DNP	CG	AT	AT			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr4:1825447_1825448CG>AT	uc003gdv.2	-	8	1552_1553	c.1255_1256CG>AT	c.(1255-1257)CGG>ATG	p.R419M		NM_012318	NP_036450	O95202	LETM1_HUMAN	leucine zipper-EF-hand containing transmembrane	419	Mitochondrial matrix (Potential).				cristae formation	integral to membrane|mitochondrial inner membrane	calcium ion binding|protein binding			central_nervous_system(1)	1			all cancers(2;0.00756)|OV - Ovarian serous cystadenocarcinoma(23;0.00989)|Epithelial(3;0.0141)			GTACATGGCCCGGGACAGGATG	0.624000													9	428					0	0	6.4e-05	0	0
WHSC1	7468	broad.mit.edu	37	4	1902634	1902635	+	Missense_Mutation	DNP	CG	AT	AT			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr4:1902634_1902635CG>AT	uc003gdz.3	+	2	429_430	c.253_254CG>AT	c.(253-255)CGG>ATG	p.R85M	WHSC1_uc003geb.3_Missense_Mutation_p.R85M|WHSC1_uc003gec.3_Missense_Mutation_p.R85M|WHSC1_uc003ged.3_Missense_Mutation_p.R85M|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gdx.2_Missense_Mutation_p.R85M|WHSC1_uc003gdy.1_Missense_Mutation_p.R85M|WHSC1_uc010icd.1_Missense_Mutation_p.R85M|WHSC1_uc003gea.1_Missense_Mutation_p.R85M|WHSC1_uc010ice.1_Missense_Mutation_p.R85M|WHSC1_uc003geg.1_Missense_Mutation_p.R85M|WHSC1_uc003geh.1_Missense_Mutation_p.R85M	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	85					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		TCTTACTTCCCGGGTGTTTAAT	0.540000			T	IGH@	MM								20	774					0	0	6.4e-05	0	0
LRRC14B	389257	broad.mit.edu	37	5	191738	191738	+	Missense_Mutation	SNP	G	A	A			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr5:191738G>A	uc003jal.1	+	1	113	c.85G>A	c.(85-87)GTG>ATG	p.V29M		NM_001080478	NP_001073947	A6NHZ5	LR14B_HUMAN	leucine rich repeat containing 14B	29										skin(1)	1						CCTGGACAGCGTGGCCCACAA	0.652000													6	44					0	0	8.12818e-05	0	0
FAM105A	54491	broad.mit.edu	37	5	14602345	14602345	+	Silent	SNP	G	A	A			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr5:14602345G>A	uc003jfj.2	+	5	515	c.402G>A	c.(400-402)AGG>AGA	p.R134R		NM_019018	NP_061891	Q9NUU6	F105A_HUMAN	hypothetical protein LOC54491	134										ovary(1)	1	Lung NSC(4;0.00592)					GACAAGTAAGGAGAGATAACT	0.358000													21	179					0	0	0.000132079	0	0
ADAMTS12	81792	broad.mit.edu	37	5	33658390	33658390	+	Silent	SNP	C	G	G			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr5:33658390C>G	uc003jia.1	-	7	1252	c.1089G>C	c.(1087-1089)CTG>CTC	p.L363L	ADAMTS12_uc010iuq.1_Silent_p.L363L	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	363	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						AAAGGTGAGACAGGCCCAGGG	0.502000										HNSCC(64;0.19)			53	146					0	0	0.000147903	0	0
HSPA1L	3305	broad.mit.edu	37	6	31778779	31778779	+	Missense_Mutation	SNP	C	T	T	rs142398035	byFrequency	TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr6:31778779C>T	uc003nxh.2	-	2	1154	c.971G>A	c.(970-972)CGG>CAG	p.R324Q	HSPA1L_uc010jte.2_Missense_Mutation_p.R324Q	NM_005527	NP_005518	P34931	HS71L_HUMAN	heat shock 70kDa protein 1-like	324					response to unfolded protein		ATP binding			ovary(3)|pleura(1)|kidney(1)|skin(1)	6						CTTGGCATCCCGAAGCGCTTT	0.498000													246	255					0	0	0.000147903	0	0
GPR116	221395	broad.mit.edu	37	6	46847621	46847621	+	Missense_Mutation	SNP	C	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr6:46847621C>T	uc003oyo.3	-	9	1259	c.970G>A	c.(970-972)GCA>ACA	p.A324T	GPR116_uc003oyp.3_Intron|GPR116_uc003oyq.3_Missense_Mutation_p.A324T|GPR116_uc010jzi.1_5'UTR|GPR116_uc003oyr.2_Missense_Mutation_p.A324T	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	324	Ig-like 1.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			TTGAAAAGTGCGGTGTAAATC	0.463000													32	63					0	0	8.91981e-05	0	0
SASH1	23328	broad.mit.edu	37	6	148865579	148865579	+	Silent	SNP	G	A	A			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr6:148865579G>A	uc003qme.1	+	18	3448	c.2973G>A	c.(2971-2973)AAG>AAA	p.K991K	SASH1_uc011eeb.1_Silent_p.K752K|SASH1_uc003qmf.1_Silent_p.K401K	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1	991	Pro-rich.						protein binding			central_nervous_system(1)	1		Ovarian(120;0.0169)		OV - Ovarian serous cystadenocarcinoma(155;5.63e-11)|GBM - Glioblastoma multiforme(68;0.0701)		CTGCCAAAAAGAGCAGAGAAC	0.587000													40	45					0	0	0.000125731	0	0
SDK1	221935	broad.mit.edu	37	7	4008918	4008919	+	Missense_Mutation	DNP	CG	AT	AT	rs144938504		TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr7:4008918_4008919CG>AT	uc003smx.2	+	11	1715_1716	c.1576_1577CG>AT	c.(1576-1578)CGG>ATG	p.R526M		NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 precursor	526	Ig-like C2-type 5.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)|skin(1)	6		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)		TGGCTCTGTCCGGATTCCTAGG	0.505000													7	430					0	0	6.4e-05	0	0
CAMK2B	816	broad.mit.edu	37	7	44266164	44266164	+	Silent	SNP	C	G	G			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr7:44266164C>G	uc003tkq.2	-	20	1758	c.1548G>C	c.(1546-1548)GGG>GGC	p.G516G	CAMK2B_uc003tkp.2_Intron|CAMK2B_uc003tkx.2_Intron|CAMK2B_uc010kyd.2_Intron|CAMK2B_uc003tkr.2_Intron|CAMK2B_uc003tks.2_Intron|CAMK2B_uc003tku.2_Intron|CAMK2B_uc003tkv.2_Intron|CAMK2B_uc003tkt.2_Intron|CAMK2B_uc003tkw.2_Intron|CAMK2B_uc010kyc.2_Intron|CAMK2B_uc003tkn.2_Silent_p.G149G	NM_001220	NP_001211	Q13554	KCC2B_HUMAN	calcium/calmodulin-dependent protein kinase II	516					interferon-gamma-mediated signaling pathway|synaptic transmission	cytosol|endocytic vesicle membrane|nucleoplasm|plasma membrane	ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity			large_intestine(1)|ovary(1)	2						AGGGCGGGGGCCCCACTGGCG	0.697000													3	8					0	0	0.00024832	0	0
RUNDC3B	154661	broad.mit.edu	37	7	87370861	87370861	+	Missense_Mutation	SNP	A	C	C			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr7:87370861A>C	uc003ujb.2	+	7	1057	c.646A>C	c.(646-648)ATA>CTA	p.I216L	RUNDC3B_uc011khd.1_Missense_Mutation_p.I199L|RUNDC3B_uc011khe.1_Missense_Mutation_p.I199L|RUNDC3B_uc003ujc.2_Missense_Mutation_p.I199L|RUNDC3B_uc003ujd.2_Missense_Mutation_p.I121L	NM_138290	NP_612147	Q96NL0	RUN3B_HUMAN	RUN domain containing 3B isoform a	216										skin(1)	1	Esophageal squamous(14;0.00164)					TCCTGCTGTAATAGACTATAC	0.269000													19	18					0	0	5.49717e-05	0	0
ZNF398	57541	broad.mit.edu	37	7	148876793	148876793	+	Missense_Mutation	SNP	C	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr7:148876793C>T	uc003wfl.2	+	6	2104	c.1829C>T	c.(1828-1830)CCC>CTC	p.P610L	ZNF398_uc011kul.1_Missense_Mutation_p.P439L|ZNF398_uc011kum.1_Missense_Mutation_p.P615L	NM_170686	NP_733787	Q8TD17	ZN398_HUMAN	zinc finger 398 isoform a	610					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00143)			CCACCAGGTCCCCTCATAACT	0.557000													9	29					0	0	1.12685e-05	0	0
PRKDC	5591	broad.mit.edu	37	8	48749816	48749816	+	Missense_Mutation	SNP	G	A	A			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr8:48749816G>A	uc003xqi.2	-	58	7775	c.7718C>T	c.(7717-7719)CCA>CTA	p.P2573L	PRKDC_uc003xqj.2_Missense_Mutation_p.P2573L|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2573	KIP-binding.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				CATGGGGTTTGGATAATCTGG	0.388000								NHEJ					13	12					0	0	7.07596e-05	0	0
CDKN2A	1029	broad.mit.edu	37	9	21971110	21971110	+	Missense_Mutation	SNP	T	C	C			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr9:21971110T>C	uc003zpk.2	-	2	460	c.248A>G	c.(247-249)CAC>CGC	p.H83R	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Silent_p.A138A	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	83	ANK 3.		H -> N (in a lung tumor).|H -> Y (in a pancreas and a head and neck tumor).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.H83Y(27)|p.?(13)|p.H83fs*2(2)|p.H83P(2)|p.H83N(1)|p.V82fs*62(1)|p.V82_E88del(1)|p.V82_G89>G(1)|p.E61_L94del(1)|p.D84fs*36(1)|p.R137fs*48(1)|p.A68fs*3(1)|p.P81_A85del(1)|p.R80fs*34(1)|p.H83Q(1)|p.H83R(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		GGCAGCGTCGTGCACGGGTCG	0.741000		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			64	7					0	0	0.000147903	0	0
PLP1	5354	broad.mit.edu	37	X	103044323	103044323	+	Missense_Mutation	SNP	C	T	T			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chrX:103044323C>T	uc010nov.2	+	7	1038	c.758C>T	c.(757-759)TCC>TTC	p.S253F	RAB9B_uc004eli.1_Intron|PLP1_uc004elk.2_Missense_Mutation_p.S253F|PLP1_uc004elj.2_Missense_Mutation_p.S218F|PLP1_uc011msf.1_Missense_Mutation_p.S198F|PLP1_uc010nox.2_Missense_Mutation_p.S207F	NM_001128834	NP_001122306	P60201	MYPR_HUMAN	proteolipid protein 1 isoform 1	253	Helical; Name=4; (Probable).		S -> F (in HLD1).		cell death|synaptic transmission	integral to membrane				ovary(1)	1						ACACTGGTTTCCCTGGTGAGT	0.453000													59	4					0	0	0.000147903	0	0
CXorf66	347487	broad.mit.edu	37	X	139038753	139038753	+	Missense_Mutation	SNP	C	T	T	rs139549978		TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chrX:139038753C>T	uc004fbb.2	-	3	410	c.388G>A	c.(388-390)GCA>ACA	p.A130T		NM_001013403	NP_001013421	Q5JRM2	CX066_HUMAN	hypothetical protein LOC347487 precursor	130	Ser-rich.|Cytoplasmic (Potential).					integral to membrane					0						CTGGATTGTGCGGATGCCCTT	0.448000													57	65					0	0	0.000147903	0	0
YY1	7528	broad.mit.edu	37	14	100728792	100728792	+	Frame_Shift_Del	DEL	A	-	-			TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr14:100728792delA	uc001ygy.1	+	2	1311	c.831delA	c.(829-831)GCAfs	p.A277fs		NM_003403	NP_003394	P25490	TYY1_HUMAN	YY1 transcription factor	277	Involved in nuclear matrix association.				cell differentiation|cellular response to UV|double-strand break repair via homologous recombination|negative regulation of transcription from RNA polymerase II promoter|response to UV-C|spermatogenesis	Ino80 complex|nuclear matrix|plasma membrane	four-way junction DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|transcription regulatory region DNA binding|zinc ion binding				0		Melanoma(154;0.152)				AACAACTGGCAGAATTTGCTA	0.398													47	57	---	---	---	---					
IL32	9235	broad.mit.edu	37	16	3119304	3119305	+	Frame_Shift_Ins	INS	-	G	G	rs2981599		TCGA-D9-A1X3-01A-11D-A197-08	TCGA-D9-A1X3-10A-01D-A199-08									Somatic	Phase_I	Capture				Illumina GAIIx	453504ec-ec7a-481c-b5d5-e32c27caede6	2ac41d53-16d3-4125-9a1f-36e88e4567d7	g.chr16:3119304_3119305insG	uc002cto.2	+	6	864_865	c.653_654insG	c.(652-654)GACfs	p.D218fs	IL32_uc002ctk.2_Frame_Shift_Ins_p.D115fs|IL32_uc010uwp.1_Frame_Shift_Ins_p.D152fs|IL32_uc010btb.2_Frame_Shift_Ins_p.D162fs|IL32_uc002ctl.2_Frame_Shift_Ins_p.D172fs|IL32_uc002ctm.2_Frame_Shift_Ins_p.D172fs|IL32_uc002ctn.2_Frame_Shift_Ins_p.D172fs|IL32_uc002cts.3_Frame_Shift_Ins_p.D172fs|IL32_uc002ctp.2_Frame_Shift_Ins_p.D152fs|IL32_uc002ctq.2_Frame_Shift_Ins_p.D218fs|IL32_uc002ctr.2_Frame_Shift_Ins_p.D152fs|IL32_uc002ctt.2_Frame_Shift_Ins_p.D172fs|IL32_uc010uwr.1_Frame_Shift_Ins_p.D132fs|IL32_uc002ctu.2_Frame_Shift_Ins_p.D163fs	NM_004221	NP_004212	P24001	IL32_HUMAN	interleukin 32 isoform B	218					cell adhesion|defense response|immune response	extracellular space	cytokine activity			pancreas(1)	1						CCACGGGGGGACAAGGAGGAGC	0.574													11	223	---	---	---	---					
