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	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	ref_context	gc_content	COSMIC_n_overlapping_mutations	ESP_AvgAAsampleReadDepth	ESP_AvgEAsampleReadDepth	ESP_AvgSampleReadDepth	ESP_Chromosome	ESP_Position	ESP_TotalAAsamplesCovered	ESP_TotalEAsamplesCovered	ESP_TotalSamplesCovered	Ensembl_so_accession	Ensembl_so_term	HGNC_AccessionNumbers	HGNC_CCDSIDs	HGNC_Chromosome	HGNC_DateModified	HGNC_DateNameChanged	HGNC_DateSymbolChanged	HGNC_EnsemblGeneID	HGNC_EnsemblIDsuppliedbyEnsembl	HGNC_Genefamilydescription	HGNC_HGNCID	HGNC_LocusGroup	HGNC_LocusType	HGNC_NameSynonyms	HGNC_OMIMIDsuppliedbyNCBI	HGNC_PreviousNames	HGNC_PreviousSymbols	HGNC_PubmedIDs	HGNC_RecordType	HGNC_RefSeqsuppliedbyNCBI	HGNC_Status	HGNC_Synonyms	HGNC_UCSCIDsuppliedbyUCSC	HGNC_UniProtIDsuppliedbyUniProt	HGNC_VEGAIDs	HGVS_coding_DNA_change	HGVS_genomic_change	HGVS_protein_change	UniProt_alt_uniprot_accessions	annotation_transcript	build	ccds_id	dbNSFP_1000Gp1_AC	dbNSFP_1000Gp1_AF	dbNSFP_1000Gp1_AFR_AC	dbNSFP_1000Gp1_AFR_AF	dbNSFP_1000Gp1_AMR_AC	dbNSFP_1000Gp1_AMR_AF	dbNSFP_1000Gp1_ASN_AC	dbNSFP_1000Gp1_ASN_AF	dbNSFP_1000Gp1_EUR_AC	dbNSFP_1000Gp1_EUR_AF	dbNSFP_Ancestral_allele	dbNSFP_CADD_phred	dbNSFP_CADD_raw	dbNSFP_CADD_raw_rankscore	dbNSFP_ESP6500_AA_AF	dbNSFP_ESP6500_EA_AF	dbNSFP_Ensembl_geneid	dbNSFP_Ensembl_transcriptid	dbNSFP_FATHMM_pred	dbNSFP_FATHMM_rankscore	dbNSFP_FATHMM_score	dbNSFP_GERP_NR	dbNSFP_GERP_RS	dbNSFP_GERP_RS_rankscore	dbNSFP_Interpro_domain	dbNSFP_LRT_Omega	dbNSFP_LRT_converted_rankscore	dbNSFP_LRT_pred	dbNSFP_LRT_score	dbNSFP_LR_pred	dbNSFP_LR_rankscore	dbNSFP_LR_score	dbNSFP_MutationAssessor_pred	dbNSFP_MutationAssessor_rankscore	dbNSFP_MutationAssessor_score	dbNSFP_MutationTaster_converted_rankscore	dbNSFP_MutationTaster_pred	dbNSFP_MutationTaster_score	dbNSFP_Polyphen2_HDIV_pred	dbNSFP_Polyphen2_HDIV_rankscore	dbNSFP_Polyphen2_HDIV_score	dbNSFP_Polyphen2_HVAR_pred	dbNSFP_Polyphen2_HVAR_rankscore	dbNSFP_Polyphen2_HVAR_score	dbNSFP_RadialSVM_pred	dbNSFP_RadialSVM_rankscore	dbNSFP_RadialSVM_score	dbNSFP_Reliability_index	dbNSFP_SIFT_converted_rankscore	dbNSFP_SIFT_pred	dbNSFP_SIFT_score	dbNSFP_SLR_test_statistic	dbNSFP_SiPhy_29way_logOdds	dbNSFP_SiPhy_29way_logOdds_rankscore	dbNSFP_SiPhy_29way_pi	dbNSFP_UniSNP_ids	dbNSFP_Uniprot_aapos	dbNSFP_Uniprot_acc	dbNSFP_Uniprot_id	dbNSFP_aaalt	dbNSFP_aapos	dbNSFP_aapos_FATHMM	dbNSFP_aapos_SIFT	dbNSFP_aaref	dbNSFP_cds_strand	dbNSFP_codonpos	dbNSFP_folddegenerate	dbNSFP_genename	dbNSFP_hg18_pos1coor	dbNSFP_phastCons100way_vertebrate	dbNSFP_phastCons100way_vertebrate_rankscore	dbNSFP_phastCons46way_placental	dbNSFP_phastCons46way_placental_rankscore	dbNSFP_phastCons46way_primate	dbNSFP_phastCons46way_primate_rankscore	dbNSFP_phyloP100way_vertebrate	dbNSFP_phyloP100way_vertebrate_rankscore	dbNSFP_phyloP46way_placental	dbNSFP_phyloP46way_placental_rankscore	dbNSFP_phyloP46way_primate	dbNSFP_phyloP46way_primate_rankscore	dbNSFP_refcodon	gencode_transcript_name	gencode_transcript_status	gencode_transcript_tags	gencode_transcript_type	gene_type	havana_transcript	init_n_lod	init_t_lod	isArtifactMode	n_alt_count	n_ref_count	oxoGCut	pox	pox_cutoff	qox	refseq_mrna_id	t_alt_count	t_lod_fstar	t_ref_count	tumor_f
LILRA1	11024	broad.mit.edu	hg19	19	55106755	55106755	+	Silent	SNP	T	T	C			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr19:55106755T>C	ENST00000453777.1	+	5	719	c.549T>C	c.(547-549)tcT>tcC	p.S183S	LILRA1_ENST00000251372.3_Silent_p.S183S|LILRA1_ENST00000473156.1_3'UTR|LILRB1_ENST00000396321.2_Intron|LILRB1_ENST00000448689.1_Intron|LILRB1_ENST00000418536.2_Intron	NM_001278318.1	NP_001265247.1	O75019	LIRA1_HUMAN	leukocyte immunoglobulin-like receptor, subfamily A (with TM domain), member 1	183	Ig-like C2-type 2.	cell surface receptor linked signaling pathway|defense response|regulation of immune response	integral to membrane|plasma membrane	antigen binding|transmembrane receptor activity	breast(2)|central_nervous_system(1)|endometrium(1)|kidney(3)|large_intestine(5)|liver(1)|lung(23)|ovary(1)|prostate(3)|skin(6)|upper_aerodigestive_tract(1)	47				GBM - Glioblastoma multiforme(193;0.0348)	CCATCTTCTCTGTGGGCCCCG	0.567	1	155.0	158.0	157.0	19	55106755	2203	4300	6503	SO:0001819	synonymous_variant	AF025530	CCDS12901.1, CCDS62802.1	19q13.4	2013-01-11			ENSG00000104974	ENSG00000104974	"""Leukocyte immunoglobulin-like receptors"", ""CD molecules"", ""Immunoglobulin superfamily / Immunoglobulin-like domain containing"""	6602	protein-coding gene	gene with protein product		604810			9548455	Standard	NM_006863	Approved	LIR-6, CD85i, LIR6	uc002qgh.2	O75019	OTTHUMG00000065701	ENST00000251372.3:c.549T>C	19.37:g.55106755T>C		O75018|Q3MJA6	ENST00000251372.3	37	CCDS12901.1																																																																																			LILRA1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000140807.2		-32.428414	0	70	196	0	0	1	0	NM_006863	4	7.305566	155	0.025157
DNAJC1	64215	broad.mit.edu	hg19	10	22055195	22055195	+	Missense_Mutation	SNP	G	G	C			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr10:22055195G>C	ENST00000376980.3	-	10	1432	c.1142C>G	c.(1141-1143)tCc>tGc	p.S381C	DNAJC1_ENST00000483085.1_5'UTR	NM_022365.3	NP_071760.2	Q96KC8	DNJC1_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 1	381		negative regulation of proteolysis|regulation of protein secretion|regulation of transcription, DNA-dependent	endoplasmic reticulum membrane|integral to membrane|microsome|nuclear membrane	ATPase activator activity|DNA binding|heat shock protein binding|unfolded protein binding	cervix(1)|endometrium(1)|large_intestine(2)|lung(13)|skin(2)|upper_aerodigestive_tract(2)	21		Breast(68;0.00869)|Prostate(175;0.0181)|Lung SC(717;0.0262)			CTCACCTGGGGAGCAGGTCAC	0.353	0	144.0	150.0	148.0	10	22055195	2203	4300	6503	SO:0001583	missense	AK026062	CCDS7136.1	10p11.23	2011-09-02			ENSG00000136770	ENSG00000136770	"""Heat shock proteins / DNAJ (HSP40)"""	20090	protein-coding gene	gene with protein product		611207				Standard	NM_022365	Approved	DNAJL1, ERdj1, MTJ1	uc001irc.3	Q96KC8	OTTHUMG00000017800	ENST00000376980.3:c.1142C>G	10.37:g.22055195G>C	ENSP00000366179:p.Ser381Cys	B0YIZ8|Q5VX89|Q9H6B8	ENST00000376980.3	37	CCDS7136.1	.	.	.	.	.	.	.	.	.	.	G	21.5	4.154020	0.78114	.	.	ENSG00000136770	ENST00000376980	T	0.29655	1.56	5.24	5.24	0.73138	Homeodomain-like (1);	0.229461	0.43747	D	0.000523	T	0.45994	0.1370	L	0.50333	1.59	0.80722	D	1	D;D	0.76494	0.999;0.993	P;P	0.55667	0.781;0.628	T	0.45498	-0.9257	10	0.87932	D	0	-0.2663	18.8415	0.92186	0.0:0.0:1.0:0.0	.	102;381	Q96NY3;Q96KC8	.;DNJC1_HUMAN	C	381	ENSP00000366179:S381C	ENSP00000366179:S381C	S	-	2	0	DNAJC1	22095201	1.000000	0.71417	1.000000	0.80357	0.900000	0.52787	4.055000	0.57441	2.447000	0.82792	0.591000	0.81541	TCC	DNAJC1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000047149.1		190.501277	0	57	154	0	0	1	0	NM_022365	56	190.501277	56	0.500000
CHST9	83539	broad.mit.edu	hg19	18	24496802	24496802	+	Silent	SNP	G	G	A			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr18:24496802G>A	ENST00000284224.8	-	6	1030	c.753C>T	c.(751-753)taC>taT	p.Y251Y	CHST9_ENST00000580774.1_3'UTR|AQP4-AS1_ENST00000579964.1_RNA|AQP4-AS1_ENST00000568797.1_RNA|CHST9_ENST00000581714.1_Silent_p.Y251Y|AQP4-AS1_ENST00000578701.1_RNA|AQP4-AS1_ENST00000582605.1_RNA	NM_031422.5	NP_113610.2	Q7L1S5	CHST9_HUMAN	carbohydrate (N-acetylgalactosamine 4-0) sulfotransferase 9	251		carbohydrate biosynthetic process|glycosaminoglycan metabolic process|hormone biosynthetic process|proteoglycan biosynthetic process|sulfur compound metabolic process	extracellular region|Golgi membrane|integral to membrane	N-acetylgalactosamine 4-O-sulfotransferase activity	breast(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(10)|lung(7)|ovary(2)|pancreas(1)|skin(3)	28	all_lung(6;0.0145)|Ovarian(20;0.124)				AATGCTTCCCGTAGTGGACAG	0.423	0	148.0	135.0	139.0	18	24496802	1886	4111	5997	SO:0001819	synonymous_variant	AF239821	CCDS42422.1, CCDS58618.1	18q11.2	2011-04-28			ENSG00000154080	ENSG00000154080	"""Sulfotransferases, membrane-bound"""	19898	protein-coding gene	gene with protein product		610191			11139592, 11445554	Standard	NM_031422	Approved	GALNAC4ST-2, GALNAC-4-ST2	uc002kwe.4	Q7L1S5		ENST00000284224.8:c.753C>T	18.37:g.24496802G>A		Q6UX69|Q9BXH3|Q9BXH4|Q9BZW9	ENST00000284224.8	37	CCDS42422.1																																																																																			CHST9-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000446549.1		-11.039686	0	51	128	0	0	1	0	NM_031422	3	6.346951	73	0.039474
GNAQ	2776	broad.mit.edu	hg19	9	80409488	80409488	+	Missense_Mutation	SNP	T	T	G	rs121913492		TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr9:80409488T>G	ENST00000286548.4	-	5	848	c.626A>C	c.(625-627)cAa>cCa	p.Q209P	GNAQ_ENST00000397476.3_Missense_Mutation_p.Q7P	NM_002072.3	NP_002063.2	P50148	GNAQ_HUMAN	guanine nucleotide binding protein (G protein), q polypeptide	209		activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|glutamate signaling pathway|negative regulation of protein kinase activity|platelet activation|protein ADP-ribosylation|protein stabilization|regulation of action potential|regulation of catenin import into nucleus	cytoplasm|heterotrimeric G-protein complex	G-protein beta/gamma-subunit complex binding|G-protein-coupled receptor binding|GTP binding|GTPase activator activity|GTPase activity|signal transducer activity	NS(1)|endometrium(3)|eye(229)|kidney(1)|large_intestine(4)|lung(6)|meninges(11)|ovary(1)|prostate(1)|skin(44)|upper_aerodigestive_tract(1)	302					CTCTGACCTTTGGCCCCCTAC	0.348	153	108.0	105.0	106.0	9	80409488	2203	4300	6503	SO:0001583	missense		CCDS6658.1	9q21	2010-03-17			ENSG00000156052	ENSG00000156052		4390	protein-coding gene	gene with protein product		600998			8825633	Standard	NM_002072	Approved	G-ALPHA-q, GAQ	uc004akw.3	P50148	OTTHUMG00000020059	ENST00000286548.4:c.626A>C	9.37:g.80409488T>G	ENSP00000286548:p.Gln209Pro	O15108|Q13462|Q6NT27|Q92471|Q9BZB9	ENST00000286548.4	37	CCDS6658.1	.	.	.	.	.	.	.	.	.	.	T	25.2	4.614273	0.87359	.	.	ENSG00000156052	ENST00000286548;ENST00000397476	D;D	0.91237	-2.81;-2.81	5.69	5.69	0.88448	.	0.000000	0.85682	D	0.000000	D	0.97164	0.9073	H	0.97291	3.975	0.80722	D	1	D	0.76494	0.999	D	0.85130	0.997	D	0.98607	1.0661	10	0.87932	D	0	.	15.9502	0.79827	0.0:0.0:0.0:1.0	.	209	P50148	GNAQ_HUMAN	P	209;7	ENSP00000286548:Q209P;ENSP00000443197:Q7P	ENSP00000286548:Q209P	Q	-	2	0	GNAQ	79599308	1.000000	0.71417	0.999000	0.59377	0.995000	0.86356	8.040000	0.89188	2.167000	0.68274	0.460000	0.39030	CAA	GNAQ-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000052761.1		148.366306	0	26	137	0	0	1	0	NM_002072	45	148.583640	55	0.450000
CDHR1	92211	broad.mit.edu	hg19	10	85956312	85956312	+	Missense_Mutation	SNP	C	C	T			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr10:85956312C>T	ENST00000372117.3	+	3	306	c.203C>T	c.(202-204)tCc>tTc	p.S68F	CDHR1_ENST00000332904.3_Missense_Mutation_p.S68F	NM_033100.2	NP_149091.1	Q96JP9	CDHR1_HUMAN	cadherin-related family member 1	68	Cadherin 1.	homophilic cell adhesion		calcium ion binding|receptor activity	breast(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(6)|liver(1)|lung(21)|ovary(1)|prostate(1)|skin(1)	36					GACCCCATCTCCTACCACATC	0.507	0	145.0	124.0	131.0	10	85956312	2203	4300	6503	SO:0001583	missense	AB053448	CCDS7372.1, CCDS53548.1	10q23.1	2014-01-28	2010-01-25	2010-01-25	ENSG00000148600	ENSG00000148600	"""Cadherins / Cadherin-related"""	14550	protein-coding gene	gene with protein product		609502	"""protocadherin 21"""	PCDH21	11597768	Standard	NM_001171971	Approved	KIAA1775, CORD15, RP65	uc001kcv.3	Q96JP9	OTTHUMG00000018634	ENST00000372117.3:c.203C>T	10.37:g.85956312C>T	ENSP00000361189:p.Ser68Phe	Q69YZ8|Q8IXY5	ENST00000372117.3	37	CCDS7372.1	.	.	.	.	.	.	.	.	.	.	C	18.11	3.549780	0.65311	.	.	ENSG00000148600	ENST00000332904;ENST00000372117	T;T	0.52057	0.68;0.68	5.57	5.57	0.84162	Cadherin (4);Cadherin-like (1);	0.519821	0.19853	N	0.104587	T	0.61274	0.2334	L	0.49640	1.575	0.80722	D	1	D;D	0.57571	0.98;0.978	P;P	0.60682	0.807;0.878	T	0.54781	-0.8242	10	0.33141	T	0.24	-28.0597	18.3121	0.90204	0.0:1.0:0.0:0.0	.	68;68	Q96JP9-2;Q96JP9	.;CDHR1_HUMAN	F	68	ENSP00000331063:S68F;ENSP00000361189:S68F	ENSP00000331063:S68F	S	+	2	0	CDHR1	85946292	1.000000	0.71417	0.994000	0.49952	0.750000	0.42670	3.282000	0.51693	2.630000	0.89119	0.561000	0.74099	TCC	CDHR1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000049111.1		90.275718	0	-9	82	0	0	1	0	NM_033100	29	90.311166	26	0.527273
ZNF439	90594	broad.mit.edu	hg19	19	11978607	11978607	+	Silent	SNP	G	G	A			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr19:11978607G>A	ENST00000304030.2	+	3	923	c.723G>A	c.(721-723)ccG>ccA	p.P241P	ZNF439_ENST00000455282.1_Silent_p.P105P|ZNF439_ENST00000592534.1_Intron	NM_152262.2	NP_689475.1	Q8NDP4	ZN439_HUMAN	zinc finger protein 439	241		regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding	breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(9)|lung(7)|pancreas(1)|skin(2)	27					GAGAGAAACCGTATGAATGTA	0.363	1	83.0	83.0	83.0	19	11978607	2203	4300	6503	SO:0001819	synonymous_variant	AL833935	CCDS12268.1	19p13.13	2013-01-08			ENSG00000171291	ENSG00000171291	"""Zinc fingers, C2H2-type"", ""-"""	20873	protein-coding gene	gene with protein product						Standard	NM_152262	Approved	DKFZp571K0837	uc002mss.3	Q8NDP4	OTTHUMG00000156527	ENST00000304030.2:c.723G>A	19.37:g.11978607G>A		Q8IYZ7|Q96SU1	ENST00000304030.2	37	CCDS12268.1																																																																																			ZNF439-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000344513.1		-14.883555	0	65	174	0	0	1	0		4	6.801264	92	0.041667
ZNF484	83744	broad.mit.edu	hg19	9	95608788	95608788	+	Missense_Mutation	SNP	A	A	C			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr9:95608788A>C	ENST00000395505.2	-	3	2265	c.2173T>G	c.(2173-2175)Tca>Gca	p.S725A	ANKRD19P_ENST00000473204.1_RNA|ZNF484_ENST00000395506.3_Missense_Mutation_p.S763A|ZNF484_ENST00000332591.6_Missense_Mutation_p.S725A|ZNF484_ENST00000375495.3_Missense_Mutation_p.S761A	NM_001261459.1|NM_001261460.1	NP_001248388.1|NP_001248389.1	Q5JVG2	ZN484_HUMAN	zinc finger protein 484	761		regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding	NS(1)|breast(1)|cervix(1)|kidney(8)|large_intestine(10)|lung(10)|prostate(2)	33					TGGAGTTGTGATTTCTTAATG	0.393	0	130.0	130.0	130.0	9	95608788	2203	4300	6503	SO:0001583	missense	AK091203	CCDS35066.1, CCDS35067.1, CCDS59136.1	9q22.32	2013-01-08			ENSG00000127081	ENSG00000127081	"""Zinc fingers, C2H2-type"", ""-"""	23385	protein-coding gene	gene with protein product						Standard	NM_001007101	Approved	BA526D8.4, FLJ33884	uc004asu.2	Q5JVG2	OTTHUMG00000020236	ENST00000375495.3:c.2281T>G	9.37:g.95608788A>C	ENSP00000364645:p.Ser761Ala	B1AL89|B4DRI2	ENST00000375495.3	37	CCDS35066.1	.	.	.	.	.	.	.	.	.	.	.	13.44	2.237208	0.39498	.	.	ENSG00000127081	ENST00000395505;ENST00000395506;ENST00000375495;ENST00000332591	T;T;T;T	0.07327	3.2;4.77;4.77;3.2	2.65	1.47	0.22746	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.07638	0.0192	L	0.43646	1.37	0.09310	N	1	B;B	0.22800	0.075;0.075	B;B	0.17433	0.018;0.018	T	0.31052	-0.9957	9	0.48119	T	0.1	.	6.5244	0.22293	0.7846:0.0:0.0:0.2154	.	763;761	B4DRI2;Q5JVG2	.;ZN484_HUMAN	A	725;763;761;725	ENSP00000378881:S725A;ENSP00000378882:S763A;ENSP00000364645:S761A;ENSP00000364646:S725A	ENSP00000364646:S725A	S	-	1	0	ZNF484	94648609	0.000000	0.05858	0.995000	0.50966	0.990000	0.78478	-2.050000	0.01404	0.409000	0.25649	0.450000	0.29827	TCA	ZNF484-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000053111.2		125.674604	0	25	183	0	0	1	0	XM_046861	40	126.979900	65	0.380952
SF3B1	23451	broad.mit.edu	hg19	2	198267483	198267483	+	Missense_Mutation	SNP	C	C	T			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr2:198267483C>T	ENST00000335508.6	-	14	1965	c.1874G>A	c.(1873-1875)cGt>cAt	p.R625H		NM_012433.2	NP_036565.2	O75533	SF3B1_HUMAN	splicing factor 3b, subunit 1, 155kDa			nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome|nuclear speck|U12-type spliceosomal complex	protein binding	NS(35)|breast(10)|central_nervous_system(3)|endometrium(8)|haematopoietic_and_lymphoid_tissue(524)|kidney(4)|large_intestine(10)|lung(19)|ovary(1)|pancreas(4)|prostate(6)|salivary_gland(1)|skin(4)|testis(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	633			OV - Ovarian serous cystadenocarcinoma(117;0.246)		TGTTGTGTTACGGACATACTC	0.438	12	95.0	92.0	93.0	2	198267483	2203	4300	6503	SO:0001583	missense	AF054284	CCDS33356.1, CCDS46479.1	2q33.1	2014-09-17	2002-08-29		ENSG00000115524	ENSG00000115524		10768	protein-coding gene	gene with protein product		605590	"""splicing factor 3b, subunit 1, 155kD"""		9585501	Standard	XM_005246428	Approved	SAP155, SF3b155, PRPF10, Prp10, Hsh155	uc002uue.3	O75533	OTTHUMG00000154447	ENST00000335508.6:c.1874G>A	2.37:g.198267483C>T	ENSP00000335321:p.Arg625His	E9PCH3	ENST00000335508.6	37	CCDS33356.1	.	.	.	.	.	.	.	.	.	.	C	35	5.485860	0.96323	.	.	ENSG00000115524	ENST00000335508	T	0.74421	-0.84	5.82	5.82	0.92795	Armadillo-like helical (1);Armadillo-type fold (1);	0.053241	0.64402	D	0.000001	D	0.91369	0.7277	H	0.96333	3.805	0.80722	D	1	D	0.89917	1.0	D	0.91635	0.999	D	0.93329	0.6699	10	0.87932	D	0	.	20.0991	0.97865	0.0:1.0:0.0:0.0	.	625	O75533	SF3B1_HUMAN	H	625	ENSP00000335321:R625H	ENSP00000335321:R625H	R	-	2	0	SF3B1	197975728	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.728000	0.84847	2.752000	0.94435	0.655000	0.94253	CGT	SF3B1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335245.2		64.937226	0	42	96	0	0	1	0		22	65.586685	35	0.385965
TMOD2	29767	broad.mit.edu	hg19	15	52065948	52065948	+	Missense_Mutation	SNP	G	G	A	rs114844653	by1000genomes	TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr15:52065948G>A	ENST00000249700.4	+	4	544	c.323G>A	c.(322-324)cGt>cAt	p.R108H	TMOD2_ENST00000435126.2_Missense_Mutation_p.R108H|TMOD2_ENST00000539962.2_Missense_Mutation_p.R64H	NM_001142885.1|NM_014548.3	NP_001136357.1|NP_055363.1	Q9NZR1	TMOD2_HUMAN	tropomodulin 2 (neuronal)	108		nervous system development	cytoplasm|cytoskeleton	actin binding|tropomyosin binding	cervix(1)|endometrium(2)|kidney(3)|large_intestine(2)|lung(3)|ovary(2)|prostate(1)|skin(1)|urinary_tract(1)	16				all cancers(107;0.00435)	ATAGAAACTCGTAAAGAAGAA	0.408	0	104.0	103.0	104.0	15	52065948	2195	4293	6488	SO:0001583	missense	AF177169	CCDS10144.1, CCDS45260.1	15q21.2	2008-05-14			ENSG00000128872	ENSG00000128872		11872	protein-coding gene	gene with protein product		602928			10662549	Standard	NM_014548	Approved	NTMOD	uc002abk.3	Q9NZR1	OTTHUMG00000131805	ENST00000249700.4:c.323G>A	15.37:g.52065948G>A	ENSP00000249700:p.Arg108His	B4DEW6	ENST00000249700.4	37	CCDS10144.1	.	.	.	.	.	.	.	.	.	.	G	9.502	1.103365	0.20632	0.0	1.16E-4	ENSG00000128872	ENST00000435126;ENST00000249700;ENST00000539962	T;T;T	0.31247	1.5;1.5;1.5	5.36	-5.36	0.02689	.	0.337879	0.32518	N	0.005991	T	0.10078	0.0247	N	0.08118	0	0.21473	N	0.999674	B;B	0.10296	0.003;0.0	B;B	0.08055	0.003;0.003	T	0.06463	-1.0825	10	0.36615	T	0.2	3.3239	4.0375	0.09737	0.5078:0.1136:0.2861:0.0924	.	108;108	Q9NZR1-2;Q9NZR1	.;TMOD2_HUMAN	H	108;108;64	ENSP00000404590:R108H;ENSP00000249700:R108H;ENSP00000437743:R64H	ENSP00000249700:R108H	R	+	2	0	TMOD2	49853240	0.000000	0.05858	0.004000	0.12327	0.997000	0.91878	-0.646000	0.05403	-0.907000	0.03862	0.655000	0.94253	CGT	TMOD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254742.2		143.905855	0	35	122	0	0	1	0		44	143.971482	39	0.530120
ADD1	118	broad.mit.edu	hg19	4	2877722	2877722	+	Missense_Mutation	SNP	G	G	C			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr4:2877722G>C	ENST00000355842.3	+	3	943	c.80G>C	c.(79-81)cGa>cCa	p.R27P	ADD1_ENST00000503455.2_Missense_Mutation_p.R27P|ADD1_ENST00000398123.2_Missense_Mutation_p.R27P|ADD1_ENST00000264758.7_Missense_Mutation_p.R27P|ADD1_ENST00000398129.1_Missense_Mutation_p.R27P|ADD1_ENST00000513328.2_Missense_Mutation_p.R27P|ADD1_ENST00000446856.1_Missense_Mutation_p.R27P|ADD1_ENST00000398125.1_Missense_Mutation_p.R27P			P35611	ADDA_HUMAN	adducin 1 (alpha)	27		actin filament bundle assembly|barbed-end actin filament capping|cellular component disassembly involved in apoptosis|positive regulation of protein binding	cytosol|F-actin capping protein complex|nucleus|plasma membrane	actin filament binding|calmodulin binding|metal ion binding|protein heterodimerization activity|protein homodimerization activity|spectrin binding|transcription factor binding	breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(3)|lung(8)|ovary(1)|prostate(2)	22				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)	TACTTCGACCGAGTAGATGAG	0.527	0	135.0	134.0	135.0	4	2877722	2203	4300	6503	SO:0001583	missense	L07261	CCDS3363.1, CCDS3364.1, CCDS43205.1, CCDS75094.1	4p16.3	2009-04-22			ENSG00000087274	ENSG00000087274		243	protein-coding gene	gene with protein product		102680			1840603	Standard	NM_001119	Approved		uc003gfq.3	P35611	OTTHUMG00000122080	ENST00000355842.3:c.80G>C	4.37:g.2877722G>C	ENSP00000348100:p.Arg27Pro	A2A3N8|A2A3P0|B4DI79|D3DVR3|D3DVR4|D3DVR5|Q13734|Q14729|Q16156|Q86XM2|Q9UJB6	ENST00000355842.3	37		.	.	.	.	.	.	.	.	.	.	G	23.2	4.382494	0.82792	.	.	ENSG00000087274	ENST00000264758;ENST00000446856;ENST00000398125;ENST00000398124;ENST00000511797;ENST00000513328;ENST00000508277;ENST00000503455;ENST00000355842;ENST00000398123;ENST00000398129	T;T;T;T;T;T;T;T;T;T	0.33216	1.42;1.42;1.42;1.42;1.42;1.42;1.42;1.42;1.42;1.42	4.99	4.99	0.66335	.	0.000000	0.85682	D	0.000000	T	0.59998	0.2235	M	0.80616	2.505	0.80722	D	1	D;D;D;D;D;D;D	0.89917	1.0;1.0;0.999;1.0;0.998;1.0;0.999	D;D;D;D;D;D;D	0.87578	0.996;0.996;0.998;0.996;0.995;0.998;0.983	T	0.65092	-0.6252	10	0.72032	D	0.01	-12.8883	18.4459	0.90683	0.0:0.0:1.0:0.0	.	27;27;27;27;27;27;27	E7ENY0;B4DI79;Q86XM2;P35611;P35611-3;P35611-2;A2A3N8	.;.;.;ADDA_HUMAN;.;.;.	P	27	ENSP00000264758:R27P;ENSP00000399828:R27P;ENSP00000381193:R27P;ENSP00000421918:R27P;ENSP00000421907:R27P;ENSP00000426700:R27P;ENSP00000423024:R27P;ENSP00000348100:R27P;ENSP00000381191:R27P;ENSP00000381197:R27P	ENSP00000264758:R27P	R	+	2	0	ADD1	2847520	1.000000	0.71417	0.979000	0.43373	0.571000	0.35966	7.529000	0.81952	2.597000	0.87782	0.591000	0.81541	CGA	ADD1-002	NOVEL	basic|exp_conf	protein_coding	protein_coding	OTTHUMT00000242839.1		99.413678	0	24	106	0	0	1	0	NM_014189	31	99.905056	44	0.413333
GP2	2813	broad.mit.edu	hg19	16	20331019	20331019	+	Silent	SNP	G	G	T			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr16:20331019G>T	ENST00000302555.5	-	6	1079	c.930C>A	c.(928-930)atC>atA	p.I310I	GP2_ENST00000573897.1_5'UTR|GP2_ENST00000341642.5_Silent_p.I163I|GP2_ENST00000381360.5_Silent_p.I166I|GP2_ENST00000381362.4_Silent_p.I313I			P55259	GP2_HUMAN	glycoprotein 2 (zymogen granule membrane)	313	ZP.		anchored to membrane|extracellular region|plasma membrane		breast(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(25)|ovary(3)|prostate(3)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	48					TGATGTTGAGGATGGTGTCTC	0.448	0	410.0	377.0	388.0	16	20331019	2203	4300	6503	SO:0001819	synonymous_variant	U36221	CCDS10582.2, CCDS42128.1, CCDS45432.1, CCDS45433.1	16p12.3	2008-02-05			ENSG00000169347	ENSG00000169347		4441	protein-coding gene	gene with protein product		602977			9605860	Standard	XM_005255259	Approved		uc002dgw.3	P55259	OTTHUMG00000131489	ENST00000381362.4:c.939C>A	16.37:g.20331019G>T		A6NFM9|A6NJA8|Q13338|Q9UIF1	ENST00000381362.4	37	CCDS42128.1																																																																																			GP2-004	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000436920.1		245.667650	1	63	224	0	1.5608e-48	1	1.80724e-48	NM_016295	82	245.703119	77	0.515723
GSG2	83903	broad.mit.edu	hg19	17	3628701	3628701	+	Missense_Mutation	SNP	G	G	C			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr17:3628701G>C	ENST00000325418.4	+	1	1491	c.1472G>C	c.(1471-1473)gGg>gCg	p.G491A	ITGAE_ENST00000571185.1_Intron|ITGAE_ENST00000263087.4_Intron	NM_031965.2	NP_114171.2	Q8TF76	HASP_HUMAN	germ cell associated 2 (haspin)	491	Protein kinase.	cell cycle|chromatin modification|intracellular protein kinase cascade	nucleus	ATP binding|protein serine/threonine kinase activity							GAGAAGATTGGGGAAGGGGTG	0.458	0	58.0	56.0	57.0	17	3628701	2203	4300	6503	SO:0001583	missense	AB039834	CCDS11036.1	17p13	2005-01-19			ENSG00000177602	ENSG00000177602		19682	protein-coding gene	gene with protein product		609240				Standard	NM_031965	Approved	haspin	uc002fwp.3	Q8TF76	OTTHUMG00000090703	ENST00000325418.4:c.1472G>C	17.37:g.3628701G>C	ENSP00000325290:p.Gly491Ala	Q5U5K3|Q96MN1|Q9BXS7	ENST00000325418.4	37	CCDS11036.1	.	.	.	.	.	.	.	.	.	.	G	18.11	3.550657	0.65311	.	.	ENSG00000177602	ENST00000325418	D	0.82081	-1.57	4.87	4.87	0.63330	Serine/threonine-protein kinase-like domain (1);Protein kinase-like domain (1);Protein kinase, catalytic domain (1);	0.000000	0.53938	D	0.000055	D	0.90741	0.7094	M	0.78801	2.425	0.80722	D	1	D	0.76494	0.999	D	0.81914	0.995	D	0.91719	0.5387	10	0.87932	D	0	-25.2746	16.0321	0.80585	0.0:0.0:1.0:0.0	.	491	Q8TF76	HASP_HUMAN	A	491	ENSP00000325290:G491A	ENSP00000325290:G491A	G	+	2	0	GSG2	3575450	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.123000	0.77176	2.648000	0.89879	0.655000	0.94253	GGG	GSG2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000207391.1		80.205254	0	36	100	0	0	1	0	NM_031965	27	80.920405	42	0.391304
ADAMTS10	81794	broad.mit.edu	hg19	19	8656924	8656924	+	Missense_Mutation	SNP	C	C	A			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr19:8656924C>A	ENST00000270328.4	-	13	1917	c.1651G>T	c.(1651-1653)Ggg>Tgg	p.G551W	ADAMTS10_ENST00000597188.1_Missense_Mutation_p.G551W|ADAMTS10_ENST00000595838.1_Silent_p.G41G			Q9H324	ATS10_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 10	551	TSP type-1 1.	proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding	NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(2)|kidney(16)|large_intestine(5)|lung(9)|ovary(1)|pancreas(2)|prostate(3)|skin(10)|urinary_tract(1)	53					GTCCACGGCCCCCAGGCTCCG	0.687	0	23.0	26.0	25.0	19	8656924	2203	4297	6500	SO:0001583	missense	AF163762	CCDS12206.1, CCDS62529.1	19p13.2	2014-08-12	2005-08-19		ENSG00000142303	ENSG00000142303	"""ADAM metallopeptidases with thrombospondin type 1 motif"""	13201	protein-coding gene	gene with protein product		608990	"""a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 10"""			Standard	XM_005272499	Approved	ADAM-TS10	uc002mkj.1	Q9H324	OTTHUMG00000182216	ENST00000597188.1:c.1651G>T	19.37:g.8656924C>A	ENSP00000471851:p.Gly551Trp	M0QZE4	ENST00000597188.1	37	CCDS12206.1	.	.	.	.	.	.	.	.	.	.	C	19.15	3.772685	0.69992	.	.	ENSG00000142303	ENST00000270328;ENST00000393912	T	0.55760	0.5	4.63	4.63	0.57726	.	0.222827	0.38217	N	0.001773	D	0.82291	0.5005	H	0.97491	4.015	0.80722	D	1	P;D	0.71674	0.956;0.998	P;D	0.87578	0.754;0.998	D	0.89347	0.3658	10	0.87932	D	0	.	16.4707	0.84111	0.0:1.0:0.0:0.0	.	305;551	Q59FE5;Q9H324	.;ATS10_HUMAN	W	551;305	ENSP00000270328:G551W	ENSP00000270328:G551W	G	-	1	0	ADAMTS10	8562924	1.000000	0.71417	1.000000	0.80357	0.485000	0.33311	5.461000	0.66699	2.122000	0.65172	0.467000	0.42956	GGG	ADAMTS10-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000460085.3		6.950823	1	10	64	0	0.0293803	1	0.0307794	NM_030957	5	11.962136	33	0.131579
BTN2A1	11120	broad.mit.edu	hg19	6	26458919	26458919	+	Missense_Mutation	SNP	C	C	A			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr6:26458919C>A	ENST00000429381.1	+	2	267	c.55C>A	c.(55-57)Ctc>Atc	p.L19I	BTN2A1_ENST00000312541.5_Missense_Mutation_p.L19I|BTN2A1_ENST00000541522.1_Intron|BTN2A1_ENST00000469185.1_Missense_Mutation_p.L19I			Q7KYR7	BT2A1_HUMAN	butyrophilin, subfamily 2, member A1	19		lipid metabolic process	integral to plasma membrane		breast(3)|central_nervous_system(1)|cervix(1)|endometrium(2)|large_intestine(2)|lung(9)|ovary(2)|prostate(1)|skin(3)|urinary_tract(3)	27					CCTCCTCCTCCTCCTCAGCCT	0.582	0	157.0	121.0	134.0	6	26458919	2203	4300	6503	SO:0001583	missense	U90543	CCDS4613.1, CCDS47390.1, CCDS56404.1, CCDS56405.1	6p22.1	2014-01-14			ENSG00000112763	ENSG00000112763	"""Immunoglobulin superfamily / V-set domain containing"", ""Immunoglobulin superfamily / C2-set domain containing"", ""Butyrophilins"""	1136	protein-coding gene	gene with protein product		613590			9382921, 9149941	Standard	NM_007049	Approved	BT2.1, BTF1, BTN2.1	uc003nib.2	Q7KYR7	OTTHUMG00000014457	ENST00000312541.5:c.55C>A	6.37:g.26458919C>A	ENSP00000312158:p.Leu19Ile	B4DLP9|E9PGR4|O00475|P78408|Q59EN4|Q7KYQ7|Q7Z386|Q96AV7|Q9NU62	ENST00000312541.5	37	CCDS4613.1	.	.	.	.	.	.	.	.	.	.	C	12.87	2.066627	0.36470	.	.	ENSG00000112763	ENST00000312541;ENST00000429381;ENST00000265424;ENST00000469185	T;T;T	0.80033	-0.63;-1.33;-1.33	3.03	-6.06	0.02165	Immunoglobulin-like (1);	2.830930	0.01625	N	0.023249	T	0.60945	0.2308	M	0.73319	2.225	0.09310	N	0.999997	D;P	0.54397	0.966;0.908	P;B	0.46144	0.505;0.277	T	0.64512	-0.6390	10	0.45353	T	0.12	.	0.458	0.00512	0.3696:0.2048:0.1227:0.3029	.	19;19	Q96AV7;Q7KYR7	.;BT2A1_HUMAN	I	19	ENSP00000312158:L19I;ENSP00000416945:L19I;ENSP00000419043:L19I	ENSP00000265424:L19I	L	+	1	0	BTN2A1	26566898	0.000000	0.05858	0.000000	0.03702	0.008000	0.06430	-1.335000	0.02662	-1.982000	0.00988	-0.516000	0.04426	CTC	BTN2A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000040122.2		-15.591623	1	11	89	0	1	1	1	NM_007049	4	7.786387	98	0.039216
CSMD3	114788	broad.mit.edu	hg19	8	113702197	113702197	+	Silent	SNP	A	A	T			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr8:113702197A>T	ENST00000297405.5	-	14	2299	c.2055T>A	c.(2053-2055)gtT>gtA	p.V685V	CSMD3_ENST00000455883.2_Silent_p.V581V|CSMD3_ENST00000343508.3_Silent_p.V645V|CSMD3_ENST00000352409.3_Silent_p.V685V	NM_198123.1	NP_937756.1	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3	685	Sushi 3.		integral to membrane|plasma membrane		breast(7)|central_nervous_system(6)|endometrium(44)|haematopoietic_and_lymphoid_tissue(8)|kidney(36)|large_intestine(72)|liver(5)|lung(389)|ovary(24)|prostate(6)|skin(23)|upper_aerodigestive_tract(19)|urinary_tract(7)	646					CAAACCTTAAAACATCACGAT	0.358	0	168.0	174.0	172.0	8	113702197	2203	4300	6503	SO:0001819	synonymous_variant	AY210419	CCDS6315.1, CCDS6316.2, CCDS6317.1	8q23.3	2007-01-06			ENSG00000164796	ENSG00000164796		19291	protein-coding gene	gene with protein product		608399				Standard	NM_052900	Approved		uc003ynu.3	Q7Z407	OTTHUMG00000157027	ENST00000297405.5:c.2055T>A	8.37:g.113702197A>T		Q96PZ3	ENST00000297405.5	37	CCDS6315.1																																																																																			CSMD3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000347141.1		171.639867	0	99	289	0	0	1	0	NM_052900	66	183.234859	178	0.270492
CENPE	1062	broad.mit.edu	hg19	4	104062907	104062907	+	Splice_Site	SNP	C	C	G			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr4:104062907C>G	ENST00000265148.3	-	35	5552	c.5463G>C	c.(5461-5463)aaG>aaC	p.K1821N	CENPE_ENST00000380026.3_Splice_Site_p.K1796N	NM_001813.2	NP_001804.2	Q02224	CENPE_HUMAN	centromere protein E, 312kDa	1821		blood coagulation|cell division|kinetochore assembly|microtubule-based movement|mitotic chromosome movement towards spindle pole|mitotic metaphase|mitotic metaphase plate congression|mitotic prometaphase|multicellular organismal development|positive regulation of protein kinase activity	condensed chromosome kinetochore|cytosol|microtubule|nucleus|spindle	ATP binding|kinetochore binding|microtubule motor activity	NS(3)|breast(6)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(3)|kidney(8)|large_intestine(20)|lung(34)|ovary(5)|pancreas(1)|prostate(2)|skin(3)|stomach(5)|urinary_tract(3)	101				OV - Ovarian serous cystadenocarcinoma(123;2.95e-08)	ATAAAAATACCTTTTCTTGTA	0.313	0	67.0	64.0	65.0	4	104062907	2202	4298	6500	SO:0001630	splice_region_variant	Z15005	CCDS34042.1, CCDS68768.1	4q24-q25	2013-11-05	2002-08-29			ENSG00000138778	"""Kinesins"", ""Serine/threonine phosphatases / Protein phosphatase 1, regulatory subunits"""	1856	protein-coding gene	gene with protein product	"""protein phosphatase 1, regulatory subunit 61"""	117143	"""centromere protein E (312kD)"""		7851898	Standard	NM_001286734	Approved	KIF10, PPP1R61	uc003hxb.1	Q02224		ENST00000380026.3:c.5388+1G>C	4.37:g.104062907C>G		A6NKY9|A8K2U7|Q4LE75	ENST00000380026.3	37		.	.	.	.	.	.	.	.	.	.	C	15.67	2.902313	0.52227	.	.	ENSG00000138778	ENST00000265148;ENST00000394771;ENST00000380026	T;T	0.71341	-0.56;-0.56	4.01	4.01	0.46588	.	.	.	.	.	D	0.82323	0.5012	M	0.78801	2.425	0.36445	D	0.865731	D;D	0.89917	1.0;0.998	D;D	0.87578	0.998;0.94	D	0.85866	0.1413	8	.	.	.	.	11.5291	0.50597	0.0:1.0:0.0:0.0	.	1796;1821	Q02224-3;Q02224	.;CENPE_HUMAN	N	1821;1821;1796	ENSP00000265148:K1821N;ENSP00000369365:K1796N	.	K	-	3	2	CENPE	104282356	1.000000	0.71417	1.000000	0.80357	0.970000	0.65996	3.531000	0.53546	2.069000	0.61940	0.643000	0.83706	AAG	CENPE-001	KNOWN	basic	protein_coding	protein_coding	OTTHUMT00000363246.2		27.976926	0	43	91	0	0	1	0		9	28.107919	6	0.600000
C20orf96	140680	broad.mit.edu	hg19	20	258020	258021	+	Frame_Shift_Del	DEL	AA	AA	-			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr20:258020_258021delAA	ENST00000360321.2	-	7	707_708	c.569_570delTT	c.(568-570)cttfs	p.L190fs	C20orf96_ENST00000382369.5_Frame_Shift_Del_p.L155fs|C20orf96_ENST00000400269.3_Frame_Shift_Del_p.L132fs	NM_080571.1|NM_153269.2	NP_542138.1|NP_695001.2	Q9NUD7	CT096_HUMAN	chromosome 20 open reading frame 96	190					endometrium(3)|large_intestine(2)|lung(4)|prostate(1)|skin(1)|urinary_tract(1)	12		all_cancers(10;0.00959)|Lung NSC(37;0.227)	OV - Ovarian serous cystadenocarcinoma(29;0.149)		CCTGCTGCTCAAGATCTGGGGA	0.574	0									SO:0001589	frameshift_variant	AL034548	CCDS12994.1, CCDS74685.1	20p13	2012-10-30			ENSG00000196476	ENSG00000196476		16227	protein-coding gene	gene with protein product						Standard	NM_153269	Approved	dJ1103G7.2	uc002wde.2	Q9NUD7	OTTHUMG00000031626	ENST00000360321.2:c.569_570delTT	20.37:g.258020_258021delAA	ENSP00000353470:p.Leu190fs	A3KPE0|B2RPH9|Q8N840|Q8NAX5	ENST00000360321.2	37	CCDS12994.1																																																																																			C20orf96-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000077439.2	.	.		68	244					NM_153269	91		115	0.44
KMT2D	8085	broad.mit.edu	hg19	12	49427665	49427667	+	In_Frame_Del	DEL	TGC	TGC	-			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr12:49427665_49427667delTGC	ENST00000301067.7	-	39	10820_10822	c.10821_10823delGCA	c.(10819-10824)cagcaa>caa	p.3607_3608QQ>Q		NM_003482.3	NP_003473.3			lysine (K)-specific methyltransferase 2D												ttgctgttgttgctgctgctgct	0.586	2									SO:0001651	inframe_deletion	AF010403	CCDS44873.1	12q13.12	2013-05-09	2013-05-09	2013-05-09	ENSG00000167548	ENSG00000167548	"""Chromatin-modifying enzymes / K-methyltransferases"", ""Zinc fingers, PHD-type"""	7133	protein-coding gene	gene with protein product		602113	"""trinucleotide repeat containing 21"", ""myeloid/lymphoid or mixed-lineage leukemia 2"""	TNRC21, MLL2	9247308	Standard	NM_003482	Approved	ALR, MLL4, CAGL114		O14686	OTTHUMG00000166524	ENST00000301067.7:c.10821_10823delGCA	12.37:g.49427674_49427676delTGC	ENSP00000301067:p.Gln3612del	O14687	ENST00000301067.7	37	CCDS44873.1																																																																																			KMT2D-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000390183.2	.	.		3	9						2		4	0.33
OVCA2	124641	broad.mit.edu	hg19	17	1945490	1945491	+	Frame_Shift_Ins	INS	-	-	C			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr17:1945490_1945491insC	ENST00000572195.1	+	1	164_165	c.149_150insC	c.(148-153)gaccccfs	p.DP50fs	DPH1_ENST00000570477.1_Intron|DPH1_ENST00000263083.6_Intron	NM_080822.2	NP_543012.1	Q8WZ82	OVCA2_HUMAN	ovarian tumor suppressor candidate 2	50		response to retinoic acid	cytoplasm	hydrolase activity							CCGGTCCCCGACCCCCCGGGCC	0.703	0									SO:0001589	frameshift_variant	AF321875	CCDS11015.1	17p13.3	2012-10-08			ENSG00000262664	ENSG00000262664		24203	protein-coding gene	gene with protein product	"""candidate tumor suppressor in ovarian cancer 2"""	607896			11979432, 8616839, 16368187	Standard	NM_080822	Approved		uc002ftx.3	Q8WZ82	OTTHUMG00000132471	ENST00000572195.1:c.155dupC	17.37:g.1945496_1945496dupC	ENSP00000461388:p.Asp50fs	Q86XN3|Q8IW87|Q9UCX9	ENST00000572195.1	37	CCDS11015.1																																																																																			OVCA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255636.5	.	.		-8	4					NM_080822	2		4	0.33
TECPR1	25851	broad.mit.edu	hg19	7	97858474	97858474	+	Frame_Shift_Del	DEL	A	A	-			TCGA-V4-A9E9-01A-11D-A39W-08	TCGA-V4-A9E9-10A-01D-A39Z-08							Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	af98e0da-fe6a-4d8c-bbff-f6810144d856	5eae119c-fc1e-4a6c-ba90-c2bfcbebd32a	g.chr7:97858474delA	ENST00000447648.2	-	16	2586	c.2287delT	c.(2287-2289)tggfs	p.W763fs	TECPR1_ENST00000379795.3_Frame_Shift_Del_p.W764fs|TECPR1_ENST00000542604.1_Frame_Shift_Del_p.W693fs			Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	763			integral to membrane	protein binding	central_nervous_system(2)|endometrium(8)|kidney(1)|large_intestine(1)|lung(9)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	26					ATCTGCCGCCAAAACCTGGAA	0.642	0	18.0	23.0	21.0	7	97858474	1922	4094	6016	SO:0001589	frameshift_variant		CCDS47648.1	7q21.3	2009-01-30			ENSG00000205356	ENSG00000205356		22214	protein-coding gene	gene with protein product		614781				Standard	NM_015395	Approved	DKFZP434B0335, FLJ23419, FLJ90593, KIAA1358	uc003upg.4	Q7Z6L1	OTTHUMG00000154273	ENST00000447648.2:c.2287delT	7.37:g.97858474delA	ENSP00000404923:p.Trp763fs	A8KAD1|B3KPZ1|C9J024|F5GX57|Q96EB0|Q9P2I9|Q9UFR6	ENST00000447648.2	37	CCDS47648.1																																																																																			TECPR1-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000334661.1	.	.		-2	5					NM_015395	2		4	0.33