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	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_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	ACHILLES_Lineage_Results_Top_Genes	CGC_CancerGermlineMut	CGC_CancerMolecularGenetics	CGC_CancerSomaticMut	CGC_CancerSyndrome	CGC_Chr	CGC_ChrBand	CGC_GeneID	CGC_Name	CGC_OtherGermlineMut	CGC_TissueType	COSMIC_n_overlapping_mutations	COSMIC_overlapping_mutation_descriptions	ClinVar_ASSEMBLY	ClinVar_HGMD_ID	ClinVar_SYM	ClinVar_TYPE	ClinVar_rs	Ensembl_so_accession	Ensembl_so_term	Familial_Cancer_Genes_Reference	Familial_Cancer_Genes_Synonym	annotation_transcript	bcgsc	broad	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	entrez_gene_id	external_id_capture	gencode_transcript_name	gencode_transcript_status	gencode_transcript_tags	gencode_transcript_type	gene_type	havana_transcript	hgsc	igv_bad	ucsc	t_alt_count	t_ref_count	n_alt_count	n_ref_count	validation_judgement_rna	validation_power_rna	validation_tumor_alt_count_rna	validation_tumor_ref_count_rna	validation_normal_alt_count_rna	validation_normal_ref_count_rna	min_val_count_rna	validation_judgement_targeted	validation_power_targeted	validation_tumor_alt_count_targeted	validation_tumor_ref_count_targeted	validation_normal_alt_count_targeted	validation_normal_ref_count_targeted	min_val_count_targeted	validation_judgement_localAssembly	validation_power_localAssembly	t_alt_count_localAssembly	t_ref_count_localAssembly	n_alt_count_localAssembly	n_ref_count_localAssembly	min_val_count_localAssembly	validation_judgement_KRAS	validation_power_KRAS	t_alt_count_KRAS	t_ref_count_KRAS	n_alt_count_KRAS	n_ref_count_KRAS	min_val_count_KRAS	pon_loglike	pon_pass_loglike	localAssembly_detected	ExAC_AN	ExAC_AC	ExAC_LQ	passExAC	SCNA_NA	SCNA_NB	SCNA_q_hat	SCNA_tau	IS_SCNA	purity	ploidy	dna_fraction_in_tumor	CCF_hat	CCF_CI95_low	CCF_CI95_high	CCF_mode	CCF_mean	CCF_median	clonal	CCF_CI_low	CCF_CI_high
TP53	7157	broad.mit.edu	37	17	7579518	7579519	+	Frame_Shift_Ins	INS	-	-	TT			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			-	TT	-	-		Valid	Somatic	Phase_I	WXS	targeted			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr17:7579518_7579519insTT	ENST00000269305.4	-	4	357_358	c.168_169insAA	c.(166-171)gaagacfs	p.D57fs	TP53_ENST00000445888.2_Frame_Shift_Ins_p.D57fs|TP53_ENST00000574684.1_5'Flank|TP53_ENST00000455263.2_Frame_Shift_Ins_p.D57fs|TP53_ENST00000420246.2_Frame_Shift_Ins_p.D57fs|TP53_ENST00000359597.4_Frame_Shift_Ins_p.D57fs|TP53_ENST00000413465.2_Frame_Shift_Ins_p.D57fs	NM_000546.5|NM_001126112.2|NM_001126118.1|NM_001276760.1|NM_001276761.1	NP_000537.3|NP_001119584.1|NP_001119590.1|NP_001263689.1|NP_001263690.1	P04637	P53_HUMAN	tumor protein p53	p.0?(8)|p.A63fs*66(3)|p.E51fs*59(1)|p.E56E(1)|p.D48fs*55(1)|p.P13fs*18(1)|p.S33fs*23(1)|p.D57_A76del20(1)|p.D57fs*86(1)		24185		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		Acetylsalicylic acid(DB00945)	GGACCTGGGTCTTCAGTGAACC	0.599000		111	Mis, N, F		breast, colorectal, lung, sarcoma, adrenocortical, glioma, multiple other tumour types	breast, sarcoma, adrenocortical carcinoma, glioma, multiple other tumour types		Other conserved DNA damage response genes	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, Familial Clustering of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			Pancreas(47;798 1329 9957 10801)	yes	Rec	yes	Li-Fraumeni syndrome	17	17p13	7157	tumor protein p53		L, E, M, O	18	Whole gene deletion(8)|Deletion - Frameshift(5)|Insertion - Frameshift(3)|Substitution - coding silent(1)|Deletion - In frame(1)						SO:0001589	frameshift_variant	Familial Cancer Database	Familial Osteogenic Sarcoma;LFS, SBLA syndrome (Sarcoma Breast Leukemia Adrenal cancer), incl.: Cancer with In Vitro Radioresistence, Familial, Li-Fraumeni-like s.;BRCAX;Familial Adrenocortical Carcinoma;	ENST00000269305.4	0	1	hg19	CCDS11118.1																																																																																				TCGA-IB-7886-01A-11D-2154-08	TP53-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367397.1	1	0	0	429	1132	0	220	0	9.999797e-01	0	43	0	220	2	1	1	225	587	0	642	2	1	1.000000	450	1128	0	221	2	0	0	0	0	0	0		-20.000000	1	1	0	0		1	0	2	2	1.766506	1	0.510000	2.620000	0.510000	0.990000	0.980000	1.000000	1.000000	0.999314	0.990000	1	0.990000	1.000000
SMAD4	4089	broad.mit.edu	37	18	48593481	48593482	+	Frame_Shift_Ins	INS	-	-	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			-	T	-	-		Valid	Somatic	Phase_I	WXS	targeted			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr18:48593481_48593482insT	ENST00000342988.3	+	10	1770_1771	c.1232_1233insT	c.(1231-1236)agttacfs	p.Y412fs	SMAD4_ENST00000588745.1_Frame_Shift_Ins_p.Y316fs|SMAD4_ENST00000398417.2_Frame_Shift_Ins_p.Y412fs	NM_005359.5	NP_005350.1	Q13485	SMAD4_HUMAN	SMAD family member 4	p.0?(36)|p.?(2)		454		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)			TTTGTACAGAGTTACTACTTAG	0.426000																								38	Whole gene deletion(36)|Unknown(2)						SO:0001589	frameshift_variant			ENST00000342988.3	0	1	hg19	CCDS11950.1																																																																																				TCGA-IB-7886-01A-11D-2154-08	SMAD4-201	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000255993.3	1	0	0	92	321	0	57	0	9.983094e-01	0	36	0	57	2	1	1	162	583	0	1131	2	1	1.000000	94	320	0	57	2	0	0	0	0	0	0		-20.000000	1	1	0	0		1	0	1	1	1.341805	1	0.510000	2.620000	0.351165	0.650000	0.540000	0.770000	0.660000	0.660714	0.650000	0	0.590000	0.720000
SORCS3	22986	broad.mit.edu	37	10	106918737	106918737	+	Missense_Mutation	SNP	C	C	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr10:106918737C>A	ENST00000369701.3	+	11	1944	c.1717C>A	c.(1717-1719)Ctt>Att	p.L573I		NM_014978.1	NP_055793.1	Q9UPU3	SORC3_HUMAN	sortilin-related VPS10 domain containing receptor 3			131		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)			AGCCCCAGGACTTGTGGTGGC	0.433000													NSCLC(116;1497 1690 7108 13108 14106)											0							SO:0001583	missense			ENST00000369701.3	1	1	hg19	CCDS7558.1	.	.	.	.	.	.	.	.	.	.	C	10.67	1.415625	0.25552	.	.	ENSG00000156395	ENST00000369701;ENST00000393176	T;T	0.57273	0.41;0.41	5.77	3.92	0.45320	VPS10 (1);	0.125004	0.56097	D	0.000037	T	0.30479	0.0766	N	0.10664	0.02	0.45216	D	0.998226	B	0.16166	0.016	B	0.18263	0.021	T	0.05402	-1.0887	9	.	.	.	.	12.4007	0.55412	0.0:0.8641:0.0:0.1359	.	573	Q9UPU3	SORC3_HUMAN	I	573;18	ENSP00000358715:L573I;ENSP00000376876:L18I	.	L	+	1	0	SORCS3	106908727	0.820000	0.29190	0.995000	0.50966	0.999000	0.98932	1.484000	0.35508	0.904000	0.36572	0.650000	0.86243	CTT		TCGA-IB-7886-01A-11D-2154-08	SORCS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050221.1	1	0	1	67	293	0	40		0	0	0	0	40	2		0	0	0	0	0	2	1	1.000000	67	288	0	40	2		0	0	0	0	40	2	-20.000000	1	1	0	0		1	1	3	4	2.240689	1	0.510000	2.620000	0.617337	0.970000	0.750000	1.000000	1.000000	0.941185	0.970000	1	0.850000	1.000000
SLC18A2	6571	broad.mit.edu	37	10	119029974	119029974	+	Splice_Site	SNP	G	G	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr10:119029974G>T	ENST00000298472.5	+	15	1583	c.1440G>T	c.(1438-1440)atG>atT	p.M480I	SLC18A2_ENST00000497497.1_3'UTR	NM_003054.4	NP_003045.2	Q05940	VMAT2_HUMAN	solute carrier family 18 (vesicular monoamine transporter), member 2			29		Colorectal(252;0.19)		Amphetamine(DB00182)|Benzphetamine(DB00865)|Deserpidine(DB01089)|Dextroamphetamine(DB01576)|Ephedra(DB01363)|Ephedrine(DB01364)|Isometheptene(DB06706)|Methamphetamine(DB01577)|Norepinephrine(DB00368)|Propylhexedrine(DB06714)|Reserpine(DB00206)|Tetrabenazine(DB04844)	AAGAAAAAATGGTAAGAAAAA	0.363000																								0							SO:0001630	splice_region_variant			ENST00000298472.5	1	0	hg19	CCDS7599.1	.	.	.	.	.	.	.	.	.	.	G	13.15	2.150787	0.37923	.	.	ENSG00000165646	ENST00000298472	T	0.03524	3.9	5.77	5.77	0.91146	.	0.041993	0.85682	D	0.000000	T	0.04227	0.0117	N	0.17723	0.515	0.54753	D	0.99998	B	0.02656	0.0	B	0.06405	0.002	T	0.53683	-0.8404	10	0.36615	T	0.2	-29.9914	19.9818	0.97329	0.0:0.0:1.0:0.0	.	480	Q05940	VMAT2_HUMAN	I	480	ENSP00000298472:M480I	ENSP00000298472:M480I	M	+	3	0	SLC18A2	119019964	1.000000	0.71417	1.000000	0.80357	0.969000	0.65631	4.576000	0.60915	2.717000	0.92951	0.462000	0.41574	ATG		TCGA-IB-7886-01A-11D-2154-08	SLC18A2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000050563.1	0	0	1	70	341	0	50	0	5.833277e-01	0	11	0	50	2		0	0	0	0	0	2	1	1.000000	70	338	0	49	2		0	0	0	0	50	2	-2.910638	1	1	0	0		1	1	3	4	2.240689	1	0.510000	2.620000	0.617337	0.890000	0.690000	1.000000	1.000000	0.892483	0.890000	1	0.780000	1.000000
ANXA7	310	broad.mit.edu	37	10	75156930	75156930	+	Missense_Mutation	SNP	G	G	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			G	A	G	G		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr10:75156930G>A	ENST00000372921.5	-	4	418	c.362C>T	c.(361-363)cCa>cTa	p.P121L	ANXA7_ENST00000492380.1_5'UTR|ANXA7_ENST00000535178.1_Intron	NM_001156.3	NP_001147.1	P20073	ANXA7_HUMAN	annexin A7			26	Prostate(51;0.0119)				ACCAGGTAGTGGAACCTGTGC	0.453000																								0							SO:0001583	missense			ENST00000372921.5	1	1	hg19	CCDS7325.1	.	.	.	.	.	.	.	.	.	.	G	14.79	2.641575	0.47153	.	.	ENSG00000138279	ENST00000372921;ENST00000372919;ENST00000394847	T;T	0.02606	4.23;4.4	5.48	4.46	0.54185	.	1.044460	0.07552	N	0.915625	T	0.08582	0.0213	L	0.32530	0.975	0.80722	D	1	D;D;P	0.69078	0.975;0.997;0.935	P;P;P	0.61397	0.575;0.888;0.476	T	0.29305	-1.0016	10	0.49607	T	0.09	.	12.7479	0.57291	0.0:0.0:0.801:0.199	.	48;121;121	B4DWU2;P20073-2;P20073	.;.;ANXA7_HUMAN	L	121	ENSP00000362012:P121L;ENSP00000362010:P121L	ENSP00000362010:P121L	P	-	2	0	ANXA7	74826936	1.000000	0.71417	0.968000	0.41197	0.052000	0.14988	2.523000	0.45580	2.736000	0.93811	0.555000	0.69702	CCA		TCGA-IB-7886-01A-11D-2154-08	ANXA7-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000048646.2	1	0	1	40	88	0	17	1	1	85	330	0	17	2		0	0	0	0	0	2	1	1.000000	40	86	0	17	2		0	0	0	0	17	2	-20.000000	1	1	0	0		1	1	3	4	2.240689	1	0.510000	2.620000	0.617337	0.990000	0.990000	1.000000	1.000000	0.999962	0.990000	1	0.990000	1.000000
NFRKB	4798	broad.mit.edu	37	11	129735831	129735831	+	Silent	SNP	C	C	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			C	T	C	C		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr11:129735831C>T	ENST00000446488.3	-	24	3682	c.3579G>A	c.(3577-3579)caG>caA	p.Q1193Q	NFRKB_ENST00000524746.1_Silent_p.Q1193Q|NFRKB_ENST00000524794.1_Silent_p.Q1218Q|NFRKB_ENST00000304521.5_Silent_p.Q1193Q	NM_001143835.1	NP_001137307.1	Q6P4R8	NFRKB_HUMAN	nuclear factor related to kappaB binding protein			32	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)			CCTTCATTGGCTGGCTGATCA	0.498000																								0							SO:0001819	synonymous_variant			ENST00000446488.3	1	1	hg19	CCDS44770.1																																																																																				TCGA-IB-7886-01A-11D-2154-08	NFRKB-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386063.2	1	0	1	52	331	0	55	1	9.987667e-01	14	52	0	55	2		0	0	0	0	0	2	1	1.000000	50	327	0	55	2		0	0	0	0	55	2	-20.000000	1	1	0	0		1	1	3	4	2.616551	1	0.510000	2.620000	0.675497	0.800000	0.610000	1.000000	1.000000	0.812023	0.800000	0	0.700000	0.910000
FAT3	120114	broad.mit.edu	37	11	92535012	92535012	+	Missense_Mutation	SNP	G	G	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr11:92535012G>A	ENST00000298047.6	+	9	8850	c.8833G>A	c.(8833-8835)Gtc>Atc	p.V2945I	FAT3_ENST00000525166.1_Missense_Mutation_p.V2795I|FAT3_ENST00000409404.2_Missense_Mutation_p.V2945I			Q8TDW7	FAT3_HUMAN	FAT atypical cadherin 3			85		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)			GGTGGTAGCCGTCCTCAGCAC	0.517000										TCGA Ovarian(4;0.039)														0							SO:0001583	missense			ENST00000298047.6	1	0	hg19		6	0.0027472527472527475	0	0.0	0	0.0	1	0.0017482517482517483	5	0.006596306068601583	G	5.340	0.247997	0.10130	0.001258	0.003609	ENSG00000165323	ENST00000298047;ENST00000409404;ENST00000525166	T;T;T	0.01767	4.65;4.65;4.65	5.6	3.72	0.42706	.	.	.	.	.	T	0.01124	0.0037	N	0.17922	0.545	0.80722	D	1	P	0.46578	0.88	B	0.41036	0.346	T	0.73251	-0.4042	9	0.26408	T	0.33	.	11.4271	0.50018	0.0681:0.1263:0.8056:0.0	.	2945	Q8TDW7-3	.	I	2945;2945;2795	ENSP00000298047:V2945I;ENSP00000387040:V2945I;ENSP00000432586:V2795I	ENSP00000298047:V2945I	V	+	1	0	FAT3	92174660	1.000000	0.71417	0.862000	0.33874	0.863000	0.49368	6.724000	0.74747	0.718000	0.32166	0.563000	0.77884	GTC		TCGA-IB-7886-01A-11D-2154-08	FAT3-201	KNOWN	basic	protein_coding	protein_coding		0	0	1	79	461	0	66		0	0	0	0	66	2		0	0	0	0	0	2	1	1.000000	79	459	0	65	2		0	0	0	0	66	2	-5.277283	1	1	120902	676	60	1	1	3	4	2.616551	1	0.510000	2.620000	0.675497	0.860000	0.690000	1.000000	1.000000	0.869292	0.860000	1	0.770000	0.960000
SBF2	81846	broad.mit.edu	37	11	9853827	9853827	+	Missense_Mutation	SNP	C	C	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			C	T	C	C		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr11:9853827C>T	ENST00000256190.8	-	27	3733	c.3596G>A	c.(3595-3597)gGa>gAa	p.G1199E		NM_030962.3	NP_112224.1	Q86WG5	MTMRD_HUMAN	SET binding factor 2			48					CCCATGGAATCCTCCAGATCG	0.483000																								0							SO:0001583	missense			ENST00000256190.8	1	1	hg19	CCDS31427.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	C|C	32|32	5.181681|5.181681	0.94885|0.94885	.|.	.|.	ENSG00000133812|ENSG00000133812	ENST00000530741|ENST00000256190	.|D	.|0.92545	.|-3.06	5.76|5.76	5.76|5.76	0.90799|0.90799	.|Myotubularin phosphatase domain (1);	.|0.000000	.|0.85682	.|D	.|0.000000	D|D	0.95787|0.95787	0.8629|0.8629	M|M	0.66506|0.66506	2.035|2.035	0.80722|0.80722	D|D	1|1	.|D	.|0.89917	.|1.0	.|D	.|0.81914	.|0.995	D|D	0.95369|0.95369	0.8462|0.8462	5|10	.|0.66056	.|D	.|0.02	.|.	20.3242|20.3242	0.98691|0.98691	0.0:1.0:0.0:0.0|0.0:1.0:0.0:0.0	.|.	.|1199	.|Q86WG5	.|MTMRD_HUMAN	N|E	83|1199	.|ENSP00000256190:G1199E	.|ENSP00000256190:G1199E	D|G	-|-	1|2	0|0	SBF2|SBF2	9810403|9810403	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.997000|0.997000	0.91878|0.91878	7.764000|7.764000	0.85297|0.85297	2.882000|2.882000	0.98803|0.98803	0.655000|0.655000	0.94253|0.94253	GAT|GGA		TCGA-IB-7886-01A-11D-2154-08	SBF2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000386911.2	1	0	1	75	226	0	49	1	9.999894e-01	15	39	0	49	2		0	0	0	0	1	2	1	1.000000	73	224	0	49	2		0	0	0	0	49	2	-20.000000	1	1	0	0		1	0	2	2	1.735826	1	0.510000	2.620000	0.510000	0.970000	0.790000	1.000000	1.000000	0.950419	0.970000	1	0.870000	1.000000
NUAK1	9891	broad.mit.edu	37	12	106460608	106460608	+	Missense_Mutation	SNP	G	G	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			G	A	G	G		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr12:106460608G>A	ENST00000261402.2	-	7	3337	c.1958C>T	c.(1957-1959)gCg>gTg	p.A653V		NM_014840.2	NP_055655.1	O60285	NUAK1_HUMAN	NUAK family, SNF1-like kinase, 1			37					GATCTCCAGCGCTTGCTTGTA	0.632000																								0							SO:0001583	missense			ENST00000261402.2	1	1	hg19	CCDS31892.1	.	.	.	.	.	.	.	.	.	.	G	33	5.203470	0.95033	.	.	ENSG00000074590	ENST00000261402	D	0.82984	-1.67	5.8	5.8	0.92144	.	0.000000	0.64402	D	0.000012	D	0.90916	0.7145	M	0.73217	2.22	0.80722	D	1	D	0.89917	1.0	D	0.71656	0.974	D	0.91082	0.4900	10	0.87932	D	0	.	20.0609	0.97674	0.0:0.0:1.0:0.0	.	653	O60285	NUAK1_HUMAN	V	653	ENSP00000261402:A653V	ENSP00000261402:A653V	A	-	2	0	NUAK1	104984738	1.000000	0.71417	0.992000	0.48379	0.945000	0.59286	9.476000	0.97823	2.755000	0.94549	0.655000	0.94253	GCG		TCGA-IB-7886-01A-11D-2154-08	NUAK1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000405767.2	1	0	1	187	521	0	142	1	9.999990e-01	2	55	0	142	2		0	0	0	0	0	2	1	1.000000	182	509	0	140	2		0	0	0	0	142	2	-20.000000	1	1	121410	6	41	1	2	2	4	1.828375	0	0.510000	2.620000	0.538259	0.990000	0.960000	1.000000	1.000000	0.998120	0.990000	1	0.990000	1.000000
CACNA2D4	93589	broad.mit.edu	37	12	1992157	1992157	+	Missense_Mutation	SNP	G	G	C	rs138567080	by1000genomes	TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr12:1992157G>C	ENST00000382722.5	-	13	1723	c.1361C>G	c.(1360-1362)aCg>aGg	p.T454R	CACNA2D4_ENST00000585732.1_Intron|CACNA2D4_ENST00000585708.1_Missense_Mutation_p.T390R|CACNA2D4_ENST00000587995.1_Missense_Mutation_p.T454R|CACNA2D4_ENST00000588077.1_Missense_Mutation_p.T390R|CACNA2D4_ENST00000586184.1_Missense_Mutation_p.T454R	NM_172364.4	NP_758952.4	Q7Z3S7	CA2D4_HUMAN	calcium channel, voltage-dependent, alpha 2/delta subunit 4			39	Ovarian(42;0.107)	Myeloproliferative disorder(1001;0.206)	OV - Ovarian serous cystadenocarcinoma(31;0.00113)		TGAGATCTGCGTGTAGTAGCC	0.642000													Colon(2;101 179 21030 23310 28141)											0							SO:0001583	missense			ENST00000382722.5	1	0	hg19	CCDS44785.1	.	.	.	.	.	.	.	.	.	.	G	21.7	4.187345	0.78789	.	.	ENSG00000151062	ENST00000456077;ENST00000280663;ENST00000382722	T	0.14022	2.54	5.43	4.54	0.55810	von Willebrand factor, type A (3);	0.000000	0.85682	D	0.000000	T	0.33818	0.0876	M	0.63428	1.95	0.80722	D	1	D	0.89917	1.0	D	0.79784	0.993	T	0.04440	-1.0951	10	0.52906	T	0.07	.	14.1451	0.65347	0.0721:0.0:0.9279:0.0	.	454	Q7Z3S7	CA2D4_HUMAN	R	390;454;454	ENSP00000372169:T454R	ENSP00000280663:T454R	T	-	2	0	CACNA2D4	1862418	1.000000	0.71417	0.861000	0.33841	0.842000	0.47809	9.476000	0.97823	1.295000	0.44724	0.462000	0.41574	ACG		TCGA-IB-7886-01A-11D-2154-08	CACNA2D4-001	KNOWN	non_canonical_U12|basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000398230.2	1	0	1	10	53	0	17		0	0	0	0	17	2		0	0	0	0	0	2	1	0.997463	10	52	0	17	2		0	0	0	0	17	2	-18.349550	1	0	0	0		1	0	2	2	1.866547	1	0.510000	2.620000	0.510000	0.630000	0.330000	1.000000	1.000000	0.650395	0.630000	0	0.470000	0.820000
KRAS	3845	broad.mit.edu	37	12	25398285	25398285	+	Missense_Mutation	SNP	C	C	A	rs121913530		TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			C	A	C	C		Valid	Somatic	Phase_I	WXS	KRAS_deep			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr12:25398285C>A	ENST00000256078.4	-	2	97	c.34G>T	c.(34-36)Ggt>Tgt	p.G12C	KRAS_ENST00000556131.1_Missense_Mutation_p.G12C|KRAS_ENST00000557334.1_Missense_Mutation_p.G12C|KRAS_ENST00000311936.3_Missense_Mutation_p.G12C	NM_033360.2	NP_203524.1	P01116	RASK_HUMAN	Kirsten rat sarcoma viral oncogene homolog	p.G12C(3001)|p.G12S(1288)|p.G12R(789)|p.G12F(46)|p.G12L(8)|p.G12I(4)|p.G12W(3)|p.A11_G12insGA(2)|p.G12Y(2)|p.G12N(1)	UBE2L3/KRAS(2)	25349	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)		CCTACGCCACCAGCTCCAACT	0.348000	G12C(CALU1_LUNG)|G12C(HCC44_LUNG)|G12C(IALM_LUNG)|G12C(KHM1B_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12C(KYSE410_OESOPHAGUS)|G12C(LU65_LUNG)|G12C(LU99_LUNG)|G12C(MIAPACA2_PANCREAS)|G12C(NCIH1373_LUNG)|G12C(NCIH1792_LUNG)|G12C(NCIH2030_LUNG)|G12C(NCIH2122_LUNG)|G12C(NCIH23_LUNG)|G12C(NCIH358_LUNG)|G12C(OV56_OVARY)|G12C(SW1463_LARGE_INTESTINE)|G12C(SW1573_LUNG)|G12C(SW837_LARGE_INTESTINE)|G12C(UMUC3_URINARY_TRACT)|G12R(CAL62_THYROID)|G12R(HS274T_BREAST)|G12R(HUPT3_PANCREAS)|G12R(KP2_PANCREAS)|G12R(PSN1_PANCREAS)|G12R(TCCPAN2_PANCREAS)|G12S(A549_LUNG)|G12S(KMS20_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12S(LS123_LARGE_INTESTINE)	119	Mis		pancreatic, colorectal, lung, thyroid, AML, others				Noonan syndrome;Cardiofaciocutaneous syndrome	TSP Lung(1;<1E-08)|Multiple Myeloma(2;<1E-6)			Pancreas(8;6 143 191 305 2070 2426 4376 10944 11745 26467 38091 50869)		Dom	yes		12	12p12.1	3845	v-Ki-ras2 Kirsten rat sarcoma 2 viral oncogene homolog		L, E, M, O	5144	Substitution - Missense(5142)|Insertion - In frame(2)	GRCh37	CM076251	KRAS	M	rs121913530	SO:0001583	missense	Familial Cancer Database	Male Turner syndrome, Pterygium Colli syndrome, incl. Noonan-like/Multiple Giant Cell Lesion syndrome; Noonan s. with multiple lentigines/LEOPARD syndrome;CFC, CFCS	ENST00000256078.4	1	1	hg19	CCDS8703.1	.	.	.	.	.	.	.	.	.	.	C	25.8	4.676185	0.88445	.	.	ENSG00000133703	ENST00000311936;ENST00000557334;ENST00000256078;ENST00000556131	T;T;T;T	0.79141	-1.24;-1.24;-1.24;-1.24	5.68	5.68	0.88126	Small GTP-binding protein domain (1);	0.000000	0.85682	D	0.000000	D	0.90466	0.7014	M	0.90650	3.135	0.80722	D	1	D;D	0.89917	1.0;1.0	D;D	0.79784	0.993;0.993	D	0.91833	0.5477	10	0.72032	D	0.01	.	18.3719	0.90409	0.0:1.0:0.0:0.0	.	12;12	P01116-2;P01116	.;RASK_HUMAN	C	12	ENSP00000308495:G12C;ENSP00000452512:G12C;ENSP00000256078:G12C;ENSP00000451856:G12C	ENSP00000256078:G12C	G	-	1	0	KRAS	25289552	1.000000	0.71417	1.000000	0.80357	0.998000	0.95712	7.743000	0.85020	2.668000	0.90789	0.563000	0.77884	GGT		TCGA-IB-7886-01A-11D-2154-08	KRAS-004	KNOWN	not_organism_supported|basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000412232.1	1	0	1	157	66	0	14	1	1	46	17	0	14	2	1	1	508	207	0	403	2	1	1.000000	155	66	0	14	2	1	1	6175	1843	0	14	2	-20.000000	1	1	121404	2	38	1	0	7	7	3.950103	1	0.510000	2.620000	0.783401	0.990000	0.990000	1.000000	1.000000	1.000000	0.990000	1	0.990000	1.000000
SUGT1	10910	broad.mit.edu	37	13	53254258	53254258	+	Missense_Mutation	SNP	G	G	C			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			G	C	G	G		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr13:53254258G>C	ENST00000343788.6	+	13	1046	c.964G>C	c.(964-966)Gat>Cat	p.D322H	SUGT1_ENST00000310528.8_Missense_Mutation_p.D290H|SUGT1_ENST00000535397.1_Missense_Mutation_p.D234H	NM_001130912.1	NP_001124384.1	Q9Y2Z0	SUGT1_HUMAN	SGT1, suppressor of G2 allele of SKP1 (S. cerevisiae)			8		Lung NSC(96;0.00212)|Breast(56;0.00235)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)			AGATGGTTCTGATGAAGTGAA	0.313000																								0							SO:0001583	missense			ENST00000343788.6	1	1	hg19	CCDS45050.1	.	.	.	.	.	.	.	.	.	.	G	19.85	3.903552	0.72754	.	.	ENSG00000165416	ENST00000343788;ENST00000535397;ENST00000310528	T;T	0.31769	1.48;1.53	5.22	4.38	0.52667	SGS (2);HSP20-like chaperone (1);	0.000000	0.85682	D	0.000000	T	0.63141	0.2486	M	0.91196	3.185	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	0.998;1.0;0.999;0.998	T	0.72818	-0.4178	10	0.72032	D	0.01	-21.0837	14.094	0.65008	0.0731:0.0:0.9269:0.0	.	234;234;322;290	F5H5A9;B4DYC6;Q9Y2Z0;Q9Y2Z0-2	.;.;SUGT1_HUMAN;.	H	322;234;290	ENSP00000367208:D322H;ENSP00000308067:D290H	ENSP00000308067:D290H	D	+	1	0	SUGT1	52152259	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	9.420000	0.97426	1.329000	0.45376	0.467000	0.42956	GAT		TCGA-IB-7886-01A-11D-2154-08	SUGT1-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000045104.2	1	0	1	262	252	0	117	1	1	89	49	0	117	2		0	0	0	0	0	2	1	1.000000	258	247	0	116	2		0	0	0	0	117	2	-20.000000	1	1	0	0		1	0	2	2	1.736236	1	0.510000	2.620000	0.510000	0.990000	0.990000	1.000000	1.000000	1.000000	0.990000	1	0.990000	1.000000
FOXG1	2290	broad.mit.edu	37	14	29237195	29237195	+	Missense_Mutation	SNP	A	A	G			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr14:29237195A>G	ENST00000313071.4	+	1	909	c.710A>G	c.(709-711)aAg>aGg	p.K237R	FOXG1_ENST00000382535.3_Missense_Mutation_p.K237R|RP11-966I7.1_ENST00000546560.1_RNA|RP11-966I7.1_ENST00000551395.1_RNA|RP11-966I7.1_ENST00000549487.1_RNA	NM_005249.4	NP_005240.3	P55316	FOXG1_HUMAN	forkhead box G1			43			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)		TCCCTCAACAAGTGCTTCGTG	0.587000																								0							SO:0001583	missense			ENST00000313071.4	1	1	hg19	CCDS9636.1	.	.	.	.	.	.	.	.	.	.	A	24.7	4.561743	0.86335	.	.	ENSG00000176165	ENST00000382535;ENST00000313071	D;D	0.96073	-3.9;-3.9	4.01	4.01	0.46588	Winged helix-turn-helix transcription repressor DNA-binding (1);Transcription factor, fork head (4);	0.000000	0.85682	U	0.000000	D	0.96664	0.8911	L	0.59912	1.85	0.58432	D	0.999999	D	0.89917	1.0	D	0.97110	1.0	D	0.96908	0.9665	10	0.87932	D	0	.	12.6221	0.56610	1.0:0.0:0.0:0.0	.	237	P55316	FOXG1_HUMAN	R	237	ENSP00000371975:K237R;ENSP00000339004:K237R	ENSP00000339004:K237R	K	+	2	0	FOXG1	28306946	1.000000	0.71417	1.000000	0.80357	0.921000	0.55340	9.184000	0.94893	1.446000	0.47643	0.254000	0.18369	AAG		TCGA-IB-7886-01A-11D-2154-08	FOXG1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000276559.3	1	0	1	104	162	0	54		0	0	0	0	54	2		0	0	0	0	0	2	1	1.000000	83	146	0	48	2		0	0	0	0	54	2	-20.000000	1	1	0	0		1	1	2	3	2.154278	1	0.510000	2.620000	0.607969	0.990000	0.990000	1.000000	1.000000	1.000000	0.990000	1	0.990000	1.000000
PLEKHH1	57475	broad.mit.edu	37	14	68044761	68044761	+	Missense_Mutation	SNP	G	G	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			G	A	G	G		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr14:68044761G>A	ENST00000329153.5	+	19	2728	c.2596G>A	c.(2596-2598)Gtg>Atg	p.V866M	PLEKHH1_ENST00000417684.2_5'Flank	NM_020715.2	NP_065766.1	Q9ULM0	PKHH1_HUMAN	pleckstrin homology domain containing, family H (with MyTH4 domain) member 1			19					CTTCATCAACGTGCCGGTGGA	0.597000																								0							SO:0001583	missense			ENST00000329153.5	1	1	hg19	CCDS45128.1	1	4.578754578754579E-4	1	0.0020325203252032522	0	0.0	0	0.0	0	0.0	G	28.8	4.949389	0.92660	.	.	ENSG00000054690	ENST00000329153	T	0.73789	-0.78	5.14	5.14	0.70334	MyTH4 domain (2);	0.000000	0.85682	D	0.000000	D	0.85647	0.5745	M	0.75264	2.295	0.80722	D	1	D	0.69078	0.997	D	0.66351	0.943	D	0.86972	0.2098	10	0.72032	D	0.01	.	18.7908	0.91973	0.0:0.0:1.0:0.0	.	866	Q9ULM0	PKHH1_HUMAN	M	866	ENSP00000330278:V866M	ENSP00000330278:V866M	V	+	1	0	PLEKHH1	67114514	1.000000	0.71417	1.000000	0.80357	0.972000	0.66771	9.257000	0.95545	2.665000	0.90641	0.655000	0.94253	GTG		TCGA-IB-7886-01A-11D-2154-08	PLEKHH1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000412730.3	1	0	1	182	326	0	96	1	9.999569e-01	16	14	0	96	2		0	0	0	0	0	2	1	1.000000	178	323	0	94	2		0	0	0	0	96	2	-20.000000	1	1	121252	1	35	1	1	2	3	2.154278	1	0.510000	2.620000	0.607969	0.990000	0.990000	1.000000	1.000000	1.000000	0.990000	1	0.990000	1.000000
FLRT2	23768	broad.mit.edu	37	14	86089365	86089365	+	Missense_Mutation	SNP	G	G	A	rs149005998		TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			G	A	G	G		Inconclusive	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr14:86089365G>A	ENST00000330753.4	+	2	2274	c.1507G>A	c.(1507-1509)Gcg>Acg	p.A503T	FLRT2_ENST00000554746.1_Missense_Mutation_p.A503T	NM_013231.4	NP_037363.1	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2			73					TAACTACCGCGCGGTAGAAGA	0.537000																								0							SO:0001583	missense			ENST00000330753.4	1	1	hg19	CCDS9877.1	.	.	.	.	.	.	.	.	.	.	G	2.547	-0.304874	0.05495	4.54E-4	2.33E-4	ENSG00000185070	ENST00000330753;ENST00000554746;ENST00000535800	T;T	0.55930	0.49;0.49	6.17	5.07	0.68467	Fibronectin, type III (1);	0.164767	0.56097	N	0.000039	T	0.39091	0.1065	L	0.38175	1.15	0.31348	N	0.682867	B	0.09022	0.002	B	0.04013	0.001	T	0.39375	-0.9617	10	0.13853	T	0.58	-6.2272	10.3338	0.43837	0.1995:0.0:0.8005:0.0	.	503	O43155	FLRT2_HUMAN	T	503;503;156	ENSP00000332879:A503T;ENSP00000451050:A503T	ENSP00000332879:A503T	A	+	1	0	FLRT2	85159118	1.000000	0.71417	0.302000	0.25058	0.145000	0.21501	4.224000	0.58593	1.277000	0.44412	0.655000	0.94253	GCG		TCGA-IB-7886-01A-11D-2154-08	FLRT2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000413193.1	1	0	1	311	483	0	126	0	9.999977e-01	0	33	0	126	2		0	0	0	0	0	2	1	1.000000	307	480	0	123	2		0	0	0	0	126	2	-20.000000	1	1	121412	11	46	1	1	2	3	2.154278	1	0.510000	2.620000	0.607969	0.990000	0.990000	1.000000	1.000000	1.000000	0.990000	1	0.990000	1.000000
BCL11B	64919	broad.mit.edu	37	14	99640770	99640770	+	Silent	SNP	G	G	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr14:99640770G>A	ENST00000357195.3	-	4	2412	c.2403C>T	c.(2401-2403)tgC>tgT	p.C801C	BCL11B_ENST00000443726.2_Silent_p.C607C|BCL11B_ENST00000345514.2_Silent_p.C730C	NM_001282237.1|NM_138576.2	NP_001269166.1|NP_612808.1	Q9C0K0	BC11B_HUMAN	B-cell CLL/lymphoma 11B (zinc finger protein)			34		Melanoma(154;0.0866)|all_epithelial(191;0.241)			ACACCTTGCCGCAGTACTCGC	0.721000			T	TLX3	T-ALL										Dom	yes		14	14q32.1	64919	B-cell CLL/lymphoma 11B  (CTIP2)		L	0							SO:0001819	synonymous_variant			ENST00000357195.3	1	1	hg19	CCDS9950.1																																																																																				TCGA-IB-7886-01A-11D-2154-08	BCL11B-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000072332.2	1	0	0	27	103	0	21		0	0	0	0	21	2		0	0	0	0	0	2	1	1.000000	27	101	0	20	2		0	0	0	0	21	2	-20.000000	1	1	121218	2	36	1	1	2	3	2.154278	1	0.510000	2.620000	0.607969	0.990000	0.710000	1.000000	1.000000	0.947854	0.990000	1	0.850000	1.000000
SLC12A6	9990	broad.mit.edu	37	15	34546711	34546711	+	Missense_Mutation	SNP	C	C	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr15:34546711C>T	ENST00000354181.3	-	9	1448	c.956G>A	c.(955-957)cGt>cAt	p.R319H	SLC12A6_ENST00000451844.2_Missense_Mutation_p.R131H|SLC12A6_ENST00000558589.1_Missense_Mutation_p.R310H|SLC12A6_ENST00000397702.2_Missense_Mutation_p.R260H|SLC12A6_ENST00000290209.5_Missense_Mutation_p.R268H|SLC12A6_ENST00000560611.1_Missense_Mutation_p.R319H|SLC12A6_ENST00000558667.1_Missense_Mutation_p.R319H|SLC12A6_ENST00000397707.2_Missense_Mutation_p.R304H|RP11-1084A12.2_ENST00000559867.1_RNA|SLC12A6_ENST00000560164.1_Missense_Mutation_p.R131H|SLC12A6_ENST00000458406.2_Missense_Mutation_p.R260H			Q9UHW9	S12A6_HUMAN	solute carrier family 12 (potassium/chloride transporter), member 6			45		all_lung(180;2.78e-08)		Potassium Chloride(DB00761)	GCCGTAGACACGCATGTTATT	0.453000																								0							SO:0001583	missense			ENST00000354181.3	1	1	hg19	CCDS58352.1	.	.	.	.	.	.	.	.	.	.	C	35	5.421433	0.96111	2.27E-4	0.0	ENSG00000140199	ENST00000290209;ENST00000397707;ENST00000354181;ENST00000397702;ENST00000458406;ENST00000451844	D;D;D;D;D	0.86366	-2.1;-2.11;-2.11;-2.11;-1.59	5.1	5.1	0.69264	Amino acid permease domain (1);	0.063721	0.64402	N	0.000006	D	0.95601	0.8570	H	0.95402	3.665	0.80722	D	1	D;D;D;D	0.89917	1.0;1.0;1.0;1.0	D;D;D;D	0.97110	0.998;0.993;0.999;1.0	D	0.96738	0.9544	10	0.87932	D	0	.	17.4519	0.87594	0.0:1.0:0.0:0.0	.	304;319;268;131	Q9UHW9-3;Q9UHW9;A0AV76;B3KXX3	.;S12A6_HUMAN;.;.	H	268;304;310;260;260;131	ENSP00000290209:R268H;ENSP00000380819:R304H;ENSP00000380814:R260H;ENSP00000387725:R260H;ENSP00000390199:R131H	ENSP00000290209:R268H	R	-	2	0	SLC12A6	32334003	1.000000	0.71417	1.000000	0.80357	0.997000	0.91878	7.651000	0.83577	2.634000	0.89283	0.655000	0.94253	CGT		TCGA-IB-7886-01A-11D-2154-08	SLC12A6-003	NOVEL	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000417991.1	1	0	0	17	254	0	38	0	6.913124e-01	0	37	0	38	2		0	0	0	0	0	2	1	0.999969	17	253	0	38	2		0	0	0	0	38	2	-19.831370	1	1	0	0		1	1	2	3	2.187446	1	0.510000	2.620000	0.609562	0.310000	0.180000	0.470000	0.300000	0.323731	0.310000	0	0.240000	0.390000
GPRC5B	51704	broad.mit.edu	37	16	19883256	19883256	+	Silent	SNP	C	C	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr16:19883256C>T	ENST00000300571.2	-	2	1103	c.912G>A	c.(910-912)acG>acA	p.T304T	GPRC5B_ENST00000569479.1_Silent_p.T304T|GPRC5B_ENST00000535671.1_Silent_p.T304T|GPRC5B_ENST00000569847.1_Silent_p.T304T|GPRC5B_ENST00000537135.1_Silent_p.T330T	NM_016235.1	NP_057319.1	Q9NZH0	GPC5B_HUMAN	G protein-coupled receptor, class C, group 5, member B			25					AGTAGTTGGGCGTGTTCTCCT	0.637000																								0							SO:0001819	synonymous_variant			ENST00000300571.2	1	1	hg19	CCDS10581.1																																																																																				TCGA-IB-7886-01A-11D-2154-08	GPRC5B-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254285.1	1	0	1	66	321	0	78	1	9.863036e-01	2	33	0	78	2	0	0	0	1	0	0	2	1	1.000000	66	319	0	77	2		0	0	0	0	78	2	-20.000000	1	1	121412	2	39	1	1	2	3	2.142268	1	0.510000	2.620000	0.607969	0.830000	0.660000	1.000000	1.000000	0.842076	0.830000	0	0.740000	0.940000
SEZ6L2	26470	broad.mit.edu	37	16	29908310	29908310	+	Missense_Mutation	SNP	G	G	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr16:29908310G>T	ENST00000308713.5	-	3	871	c.344C>A	c.(343-345)gCa>gAa	p.A115E	SEZ6L2_ENST00000346932.5_Missense_Mutation_p.A115E|SEZ6L2_ENST00000350527.3_Intron|SEZ6L2_ENST00000537485.1_Missense_Mutation_p.A71E|SEZ6L2_ENST00000562159.1_5'UTR	NM_001114099.2|NM_201575.3	NP_001107571.1|NP_963869.2	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2			39					AGTGGGGCCTGCCCCCCTGAC	0.736000																								0							SO:0001583	missense			ENST00000308713.5	0	1	hg19	CCDS10659.1	.	.	.	.	.	.	.	.	.	.	G	18.09	3.546087	0.65198	.	.	ENSG00000174938	ENST00000308713;ENST00000346932;ENST00000537485	T;T;T	0.44083	0.93;0.93;0.93	5.36	5.36	0.76844	.	0.123614	0.36374	N	0.002633	T	0.26231	0.0640	N	0.19112	0.55	0.31331	N	0.684786	B;B;B;B	0.33238	0.403;0.281;0.281;0.281	B;B;B;B	0.30855	0.121;0.057;0.104;0.057	T	0.24154	-1.0168	9	.	.	.	.	11.3559	0.49615	0.0844:0.0:0.9156:0.0	.	71;115;115;115	F5H293;B7Z5L4;Q9BW82;Q6UXD5	.;.;.;SE6L2_HUMAN	E	115;115;71	ENSP00000312550:A115E;ENSP00000319215:A115E;ENSP00000439412:A71E	.	A	-	2	0	SEZ6L2	29815811	0.445000	0.25657	1.000000	0.80357	0.965000	0.64279	3.770000	0.55310	2.523000	0.85059	0.561000	0.74099	GCA		TCGA-IB-7886-01A-11D-2154-08	SEZ6L2-002	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000255154.2	1	0	0	4	51	0	11	0	1.907060e-01	0	9	0	11	2		0	0	0	0	0	2	1	0.869008	4	46	0	10	2		0	0	0	0	11	2	-9.257908	1	1	0	0		1	1	2	3	2.115115	1	0.510000	2.620000	0.603110	0.400000	0.130000	1.000000	0.360000	0.456623	0.400000	0	0.240000	0.660000
FUS	2521	broad.mit.edu	37	16	31200485	31200485	+	Silent	SNP	C	C	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			C	T	C	C		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr16:31200485C>T	ENST00000254108.7	+	9	979	c.874C>T	c.(874-876)Ctg>Ttg	p.L292L	FUS_ENST00000474990.1_3'UTR|FUS_ENST00000380244.3_Silent_p.L291L|FUS_ENST00000568685.1_Silent_p.L293L	NM_001170634.1|NM_001170937.1|NM_004960.3	NP_001164105.1|NP_001164408.1|NP_004951.1	P35637	FUS_HUMAN	FUS RNA binding protein		FUS/ERG(167)|FUS/DDIT3(631)|FUS/FEV(2)|FUS/ATF1(4)|FUS/CREB3L1(6)|FUS/CREB3L2(158)	22		Renal(780;0.000219)|Breast(268;0.00957)|Hepatocellular(780;0.121)			TGTGCAAGGCCTGGGTGAGAA	0.388000			T	DDIT3, ERG, FEV, ATF1, CREB3L2, CREB3L1	liposarcoma, AML, Ewing sarcoma, angiomatoid fibrous histiocytoma, fibromyxoid sarcoma										Dom	yes		16	16p11.2	2521	fusion, derived from t(12;16) malignant liposarcoma		M, L	0							SO:0001819	synonymous_variant			ENST00000254108.7	1	1	hg19	CCDS10707.1																																																																																				TCGA-IB-7886-01A-11D-2154-08	FUS-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000255526.2	1	0	0	262	1091	0	193	1	1	240	1009	0	193	2		0	0	0	0	0	2	1	1.000000	259	1083	0	191	2		0	0	0	0	193	2	-20.000000	1	1	0	0		1	1	2	3	2.115115	1	0.510000	2.620000	0.603110	0.930000	0.830000	1.000000	1.000000	0.939873	0.930000	1	0.880000	1.000000
CDH11	1009	broad.mit.edu	37	16	64984898	64984898	+	Missense_Mutation	SNP	G	G	A	rs147033764		TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			G	A	G	G		Inconclusive	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr16:64984898G>A	ENST00000268603.4	-	12	2281	c.1666C>T	c.(1666-1668)Cgg>Tgg	p.R556W	CDH11_ENST00000394156.3_Missense_Mutation_p.R556W|CDH11_ENST00000566827.1_Missense_Mutation_p.R430W	NM_001797.2	NP_001788.2	P55287	CAD11_HUMAN	cadherin 11, type 2, OB-cadherin (osteoblast)			88		Ovarian(137;0.0973)			CCTCCACGCCGGGCGTACACG	0.592000			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)					Dom	yes		16	16q22.1	1009	cadherin 11, type 2, OB-cadherin (osteoblast)		M	0							SO:0001583	missense			ENST00000268603.4	1	1	hg19	CCDS10803.1	.	.	.	.	.	.	.	.	.	.	G	17.16	3.319581	0.60524	.	.	ENSG00000140937	ENST00000268603;ENST00000394156;ENST00000538390	T;T	0.61040	2.08;0.14	5.55	4.51	0.55191	Cadherin (3);Cadherin-like (1);	0.421596	0.26193	N	0.025782	T	0.72045	0.3412	M	0.89715	3.055	0.37759	D	0.926242	D;D	0.65815	0.995;0.991	P;P	0.53861	0.736;0.462	T	0.80058	-0.1541	10	0.87932	D	0	.	9.7974	0.40744	0.0:0.1189:0.6897:0.1914	.	556;556	P55287-2;P55287	.;CAD11_HUMAN	W	556;556;539	ENSP00000268603:R556W;ENSP00000377711:R556W	ENSP00000268603:R556W	R	-	1	2	CDH11	63542399	1.000000	0.71417	1.000000	0.80357	0.526000	0.34562	1.290000	0.33319	2.594000	0.87642	0.655000	0.94253	CGG		TCGA-IB-7886-01A-11D-2154-08	CDH11-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000268755.1	1	0	1	40	205	0	31	0	1	1	422	0	31	2		0	0	0	0	0	2	1	1.000000	39	204	0	30	2		0	0	0	0	31	2	-2.753065	1	1	0	0		1	1	2	3	2.132622	1	0.510000	2.620000	0.607969	0.800000	0.590000	1.000000	1.000000	0.810074	0.800000	0	0.690000	0.930000
CYP4F22	126410	broad.mit.edu	37	19	15651359	15651359	+	Missense_Mutation	SNP	G	G	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr19:15651359G>A	ENST00000269703.3	+	8	969	c.770G>A	c.(769-771)cGc>cAc	p.R257H	CYP4F22_ENST00000601005.2_Missense_Mutation_p.R257H	NM_173483.3	NP_775754.2	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F, polypeptide 22			37					ATTTACTACCGCTCGGCGGAT	0.582000																								0							SO:0001583	missense			ENST00000269703.3	1	1	hg19	CCDS12331.1	.	.	.	.	.	.	.	.	.	.	G	10.16	1.274344	0.23307	0.0	1.16E-4	ENSG00000171954	ENST00000269703	T	0.68765	-0.35	5.39	-6.85	0.01681	.	0.385586	0.27406	N	0.019502	T	0.55609	0.1931	L	0.45228	1.405	0.22511	N	0.999039	B	0.09022	0.002	B	0.08055	0.003	T	0.11060	-1.0603	10	0.62326	D	0.03	.	19.8166	0.96571	0.0:0.0:0.1486:0.8514	.	257	Q6NT55	CP4FN_HUMAN	H	257	ENSP00000269703:R257H	ENSP00000269703:R257H	R	+	2	0	CYP4F22	15512359	0.063000	0.20901	0.001000	0.08648	0.004000	0.04260	0.258000	0.18387	-1.590000	0.01623	0.453000	0.30009	CGC		TCGA-IB-7886-01A-11D-2154-08	CYP4F22-002	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000461338.2	1	0	1	207	290	0	89		0	0	0	0	89	2		0	0	0	0	0	2	1	1.000000	201	284	0	89	2		0	0	0	0	89	2	-20.000000	1	1	121412	4	41	1	1	2	3	2.079699	1	0.510000	2.620000	0.599804	0.990000	0.990000	1.000000	1.000000	1.000000	0.990000	1	0.990000	1.000000
ZNF99	7652	broad.mit.edu	37	19	22940448	22940448	+	Missense_Mutation	SNP	G	G	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr19:22940448G>T	ENST00000596209.1	-	4	2353	c.2263C>A	c.(2263-2265)Cat>Aat	p.H755N	CTC-451A6.4_ENST00000442497.2_lincRNA|ZNF99_ENST00000397104.3_Missense_Mutation_p.H664N	NM_001080409.2	NP_001073878.2	A8MXY4	ZNF99_HUMAN	zinc finger protein 99	p.H664D(1)		124		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)			TCTGCAGTATGAATTACCTTA	0.353000																								1	Substitution - Missense(1)						SO:0001583	missense			ENST00000596209.1	0	1	hg19	CCDS59369.1	.	.	.	.	.	.	.	.	.	.	g	12.79	2.043291	0.36085	.	.	ENSG00000213973	ENST00000397104	T	0.28895	1.59	0.726	0.726	0.18248	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.62109	0.2401	H	0.94542	3.55	0.24997	N	0.991498	D	0.89917	1.0	D	0.97110	1.0	T	0.50608	-0.8808	9	0.87932	D	0	.	8.9692	0.35897	0.0:0.0:1.0:0.0	.	664	A8MXY4	ZNF99_HUMAN	N	664	ENSP00000380293:H664N	ENSP00000380293:H664N	H	-	1	0	ZNF99	22732288	0.998000	0.40836	0.006000	0.13384	0.035000	0.12851	4.228000	0.58619	0.680000	0.31366	0.400000	0.26472	CAT		TCGA-IB-7886-01A-11D-2154-08	ZNF99-001	NOVEL	not_best_in_genome_evidence|basic|CCDS	protein_coding	protein_coding	OTTHUMT00000464591.1	1	0	1	47	266	0	48		0	0	0	0	48	2		0	0	0	0	0	2	1	1.000000	44	213	0	54	2		0	0	0	0	48	2	-20.000000	1	1	0	0		1	1	2	3	2.079699	1	0.510000	2.620000	0.599804	0.730000	0.540000	1.000000	0.720000	0.756034	0.730000	0	0.630000	0.880000
ZNF675	171392	broad.mit.edu	37	19	23836431	23836431	+	Missense_Mutation	SNP	C	C	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			C	T	C	C		Inconclusive	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr19:23836431C>T	ENST00000359788.4	-	4	1472	c.1304G>A	c.(1303-1305)cGa>cAa	p.R435Q	ZNF675_ENST00000601935.1_Intron|ZNF675_ENST00000596211.1_Intron|ZNF675_ENST00000600313.1_Intron	NM_138330.2	NP_612203.2	Q8TD23	ZN675_HUMAN	zinc finger protein 675			27		all_lung(12;0.11)|Lung NSC(12;0.163)|all_epithelial(12;0.206)			TTTTGAGGATCGGTTAAAAGC	0.378000																								0							SO:0001583	missense			ENST00000359788.4	1	0	hg19	CCDS32981.1	.	.	.	.	.	.	.	.	.	.	.	0.409	-0.914248	0.02415	.	.	ENSG00000197372	ENST00000359788	T	0.07444	3.19	0.876	-1.75	0.08031	Zinc finger, C2H2-like (1);Zinc finger, C2H2 (3);Zinc finger, C2H2-type/integrase, DNA-binding (1);	.	.	.	.	T	0.03263	0.0095	N	0.12443	0.215	0.09310	N	1	B	0.22909	0.077	B	0.12837	0.008	T	0.46624	-0.9178	9	0.08381	T	0.77	.	5.1337	0.14924	0.0:0.3802:0.0:0.6198	.	435	Q8TD23	ZN675_HUMAN	Q	435	ENSP00000352836:R435Q	ENSP00000352836:R435Q	R	-	2	0	ZNF675	23628271	0.000000	0.05858	0.008000	0.14137	0.008000	0.06430	-3.295000	0.00523	-0.722000	0.04922	-0.708000	0.03648	CGA		TCGA-IB-7886-01A-11D-2154-08	ZNF675-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000466433.1	1	0	1	140	217	0	65	0	9.980627e-01	1	17	0	65	2		0	0	0	0	0	2	1	1.000000	138	216	0	64	2		0	0	0	0	65	2	-19.540570	1	1	0	0		1	1	2	3	2.079699	1	0.510000	2.620000	0.599804	0.990000	0.990000	1.000000	1.000000	1.000000	0.990000	1	0.990000	1.000000
CNTD2	79935	broad.mit.edu	37	19	40729348	40729348	+	Missense_Mutation	SNP	C	C	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr19:40729348C>A	ENST00000430325.2	-	4	667	c.619G>T	c.(619-621)Ggc>Tgc	p.G207C	CNTD2_ENST00000513948.1_Missense_Mutation_p.G101C	NM_024877.3	NP_079153.2	Q9H8S5	CNTD2_HUMAN	cyclin N-terminal domain containing 2			2					AGCAGCGGGCCGGGGTGGTGC	0.726000																								0							SO:0001583	missense			ENST00000430325.2	0	1	hg19	CCDS12551.2	.	.	.	.	.	.	.	.	.	.	C	12.98	2.101787	0.37048	.	.	ENSG00000105219	ENST00000430325;ENST00000513948	T;T	0.30981	1.51;1.52	4.02	4.02	0.46733	.	.	.	.	.	T	0.40570	0.1122	N	0.24115	0.695	0.26488	N	0.974985	D	0.89917	1.0	D	0.75020	0.985	T	0.22452	-1.0216	9	0.54805	T	0.06	.	13.1598	0.59538	0.0:1.0:0.0:0.0	.	207	B4DX65	.	C	207;101	ENSP00000396755:G207C;ENSP00000425529:G101C	ENSP00000396755:G207C	G	-	1	0	CNTD2	45421188	0.020000	0.18652	0.109000	0.21407	0.116000	0.19942	1.586000	0.36611	2.078000	0.62432	0.561000	0.74099	GGC		TCGA-IB-7886-01A-11D-2154-08	CNTD2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360785.1	0	0	0	32	91	0	16		0	0	0	0	16	2		0	0	0	0	0	2	1	1.000000	31	87	0	15	2		0	0	0	0	16	2	-20.000000	1	1	0	0		1	2	2	4	2.374902	1	0.510000	2.620000	0.644257	0.990000	0.990000	1.000000	1.000000	0.999080	0.990000	1	0.990000	1.000000
CEACAM3	1084	broad.mit.edu	37	19	42312866	42312866	+	Missense_Mutation	SNP	G	G	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr19:42312866G>A	ENST00000357396.3	+	3	681	c.440G>A	c.(439-441)gGc>gAc	p.G147D	CEACAM3_ENST00000344550.4_Missense_Mutation_p.G147D|CEACAM3_ENST00000221999.4_Missense_Mutation_p.G147D|CEACAM3_ENST00000595255.1_3'UTR	NM_001815.2	NP_001806.2	P40198	CEAM3_HUMAN	carcinoembryonic antigen-related cell adhesion molecule 3			19					AATGCCCCAGGCCTTCCTGTG	0.612000																								0							SO:0001583	missense			ENST00000357396.3	1	1	hg19	CCDS12586.2	.	.	.	.	.	.	.	.	.	.	G	9.004	0.980901	0.18812	.	.	ENSG00000170956	ENST00000357396;ENST00000221999;ENST00000344550	T;T;T	0.01272	5.12;5.07;5.07	2.21	-1.96	0.07525	.	.	.	.	.	T	0.03348	0.0097	M	0.62088	1.915	0.09310	N	1	D;D	0.69078	0.995;0.997	D;D	0.68943	0.961;0.941	T	0.40403	-0.9565	9	0.17369	T	0.5	.	1.0058	0.01487	0.1539:0.2257:0.3909:0.2295	.	147;147	G5E978;P40198	.;CEAM3_HUMAN	D	147	ENSP00000349971:G147D;ENSP00000221999:G147D;ENSP00000341725:G147D	ENSP00000221999:G147D	G	+	2	0	CEACAM3	47004706	0.002000	0.14202	0.001000	0.08648	0.015000	0.08874	0.766000	0.26560	-0.299000	0.08909	0.514000	0.50259	GGC		TCGA-IB-7886-01A-11D-2154-08	CEACAM3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000316509.2	1	0	1	409	817	0	162	0	1.114727e-01	0	2	0	162	2		0	0	0	0	0	2	1	1.000000	396	802	0	159	2		0	0	0	0	162	2	-20.000000	1	1	0	0		1	2	2	4	2.374902	1	0.510000	2.620000	0.644257	0.990000	0.990000	1.000000	1.000000	1.000000	0.990000	1	0.990000	1.000000
CIC	23152	broad.mit.edu	37	19	42797190	42797190	+	Silent	SNP	C	C	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr19:42797190C>A	ENST00000575354.2	+	15	3592	c.3552C>A	c.(3550-3552)atC>atA	p.I1184I	CIC_ENST00000160740.3_Silent_p.I1182I|CIC_ENST00000572681.2_Silent_p.I2091I	NM_015125.3	NP_055940.3	Q96RK0	CIC_HUMAN	capicua transcriptional repressor			82		Prostate(69;0.00682)			AGGCAGCCATCGCCAGCATTC	0.662000			Mis, F, S		oligodendroglioma										Rec	yes		19	19q13.2	23152	capicua homolog		O	0							SO:0001819	synonymous_variant			ENST00000575354.2	1	1	hg19	CCDS12601.1																																																																																				TCGA-IB-7886-01A-11D-2154-08	CIC-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000438532.2	1	0	1	72	166	0	37	0	9.884060e-01	1	18	0	37	2		0	0	0	0	0	2	1	1.000000	70	164	0	36	2		0	0	0	0	37	2	-20.000000	1	1	0	0		1	2	2	4	2.374902	1	0.510000	2.620000	0.644257	0.990000	0.990000	1.000000	1.000000	1.000000	0.990000	1	0.990000	1.000000
ALDH16A1	126133	broad.mit.edu	37	19	49971707	49971707	+	Missense_Mutation	SNP	G	G	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr19:49971707G>T	ENST00000293350.4	+	15	2171	c.2008G>T	c.(2008-2010)Gac>Tac	p.D670Y	CTD-3148I10.9_ENST00000599536.1_Intron|ALDH16A1_ENST00000540132.1_Missense_Mutation_p.D507Y|ALDH16A1_ENST00000455361.2_Missense_Mutation_p.D619Y|ALDH16A1_ENST00000433981.2_Missense_Mutation_p.D505Y	NM_153329.3	NP_699160.2	Q8IZ83	A16A1_HUMAN	aldehyde dehydrogenase 16 family, member A1			20		all_lung(116;5.39e-06)|Lung NSC(112;1.97e-05)|all_neural(266;0.0966)|Ovarian(192;0.15)			GGTGTGTCCGGACGAGTGGCC	0.697000																								0							SO:0001583	missense			ENST00000293350.4	1	1	hg19	CCDS12766.1	.	.	.	.	.	.	.	.	.	.	G	13.73	2.324210	0.41197	.	.	ENSG00000161618	ENST00000293350;ENST00000455361;ENST00000540132;ENST00000433981	T;T;T;T	0.73789	-0.78;-0.78;-0.78;-0.78	4.89	4.89	0.63831	Aldehyde dehydrogenase domain (1);Aldehyde dehydrogenase, N-terminal (1);Aldehyde/histidinol dehydrogenase (1);	0.101073	0.64402	D	0.000004	D	0.83912	0.5357	M	0.68593	2.085	0.35738	D	0.818491	D;D;D	0.89917	0.999;0.999;1.0	D;D;D	0.81914	0.959;0.967;0.995	D	0.88296	0.2946	10	0.62326	D	0.03	-6.9053	13.9554	0.64144	0.0:0.0:1.0:0.0	.	507;619;670	F5H4B6;B4DLQ1;Q8IZ83	.;.;A16A1_HUMAN	Y	670;619;507;505	ENSP00000293350:D670Y;ENSP00000410142:D619Y;ENSP00000445088:D507Y;ENSP00000398675:D505Y	ENSP00000293350:D670Y	D	+	1	0	ALDH16A1	54663519	0.965000	0.33210	0.523000	0.27875	0.062000	0.15995	2.375000	0.44283	2.426000	0.82243	0.485000	0.47835	GAC		TCGA-IB-7886-01A-11D-2154-08	ALDH16A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000465358.1	1	0	1	259	725	0	194	0	5.878237e-01	1	6	0	194	2		0	0	0	0	0	2	1	1.000000	257	716	0	189	2		0	0	0	0	194	2	-20.000000	1	1	0	0		1	2	2	4	2.544373	1	0.510000	2.620000	0.667639	0.990000	0.990000	1.000000	1.000000	1.000000	0.990000	1	0.990000	1.000000
INSR	3643	broad.mit.edu	37	19	7117089	7117089	+	Missense_Mutation	SNP	A	A	C			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			A	C	A	A		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr19:7117089A>C	ENST00000302850.5	-	22	4269	c.4127T>G	c.(4126-4128)tTg>tGg	p.L1376W	INSR_ENST00000341500.5_Missense_Mutation_p.L1364W	NM_000208.2	NP_000199.2	P06213	INSR_HUMAN	insulin receptor			66				"""Insulin(DB00071)|""Insulin(DB08914)|Insulin Aspart(DB01306)|Insulin Detemir(DB01307)|Insulin Glargine(DB00047)|Insulin Glulisine(DB01309)|Insulin Lispro(DB00046)|Insulin Regular(DB00030)|Mecasermin(DB01277)"	GGACCGAGGCAAGGTCAGAAT	0.567000																								0							SO:0001583	missense			ENST00000302850.5	1	1	hg19	CCDS12176.1	.	.	.	.	.	.	.	.	.	.	A	17.17	3.320919	0.60634	.	.	ENSG00000171105	ENST00000302850;ENST00000341500	T;T	0.79940	-1.32;-1.32	4.9	4.9	0.64082	.	0.205339	0.23828	N	0.044170	D	0.90058	0.6895	M	0.86651	2.83	0.44562	D	0.997526	D;D	0.89917	1.0;0.999	D;D	0.80764	0.994;0.986	D	0.91501	0.5219	10	0.87932	D	0	.	12.5167	0.56036	1.0:0.0:0.0:0.0	.	1364;1376	P06213-2;P06213	.;INSR_HUMAN	W	1376;1364	ENSP00000303830:L1376W;ENSP00000342838:L1364W	ENSP00000303830:L1376W	L	-	2	0	INSR	7068089	1.000000	0.71417	0.947000	0.38551	0.478000	0.33099	6.780000	0.75063	2.057000	0.61298	0.460000	0.39030	TTG		TCGA-IB-7886-01A-11D-2154-08	INSR-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000458544.1	1	0	1	149	569	0	109	1	1	11	80	0	109	2		0	0	0	0	0	2	1	1.000000	146	557	0	107	2		0	0	0	0	109	2	-20.000000	1	1	0	0		1	1	2	3	2.079699	1	0.510000	2.620000	0.599804	0.990000	0.850000	1.000000	1.000000	0.973255	0.990000	1	0.920000	1.000000
PAPPA2	60676	broad.mit.edu	37	1	176759114	176759114	+	Splice_Site	SNP	G	G	C			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr1:176759114G>C	ENST00000367662.3	+	18	6048		c.e18+1			NM_020318.2	NP_064714.2	Q9BXP8	PAPP2_HUMAN	pappalysin 2			226					ACGTGAAAAGGTAAGGAACAT	0.418000																								0							SO:0001630	splice_region_variant			ENST00000367662.3	1	1	hg19	CCDS41438.1	.	.	.	.	.	.	.	.	.	.	G	16.56	3.156713	0.57259	.	.	ENSG00000116183	ENST00000367662	.	.	.	5.64	5.64	0.86602	.	.	.	.	.	.	.	.	.	.	.	0.80722	D	1	.	.	.	.	.	.	.	.	.	.	.	.	.	.	16.6377	0.85063	0.0:0.0:1.0:0.0	.	.	.	.	.	-1	.	.	.	+	.	.	PAPPA2	175025737	1.000000	0.71417	1.000000	0.80357	0.568000	0.35870	6.533000	0.73829	2.651000	0.90000	0.650000	0.86243	.		TCGA-IB-7886-01A-11D-2154-08	PAPPA2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000084763.1	1	0	1	129	517	0	96		0	0	0	0	96	2		0	0	0	0	0	2	1	1.000000	129	510	0	96	2		0	0	0	0	96	2	-20.000000	1	1	0	0		1	1	2	3	2.193395	1	0.510000	2.620000	0.609562	0.970000	0.830000	1.000000	1.000000	0.961422	0.970000	1	0.900000	1.000000
SLC30A1	7779	broad.mit.edu	37	1	211751575	211751575	+	Missense_Mutation	SNP	T	T	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr1:211751575T>A	ENST00000367001.4	-	1	509	c.380A>T	c.(379-381)aAc>aTc	p.N127I		NM_021194.2	NP_067017.2	Q9Y6M5	ZNT1_HUMAN	solute carrier family 30 (zinc transporter), member 1			11					CCCCAGCACGTTGACCAGCAG	0.701000																								0							SO:0001583	missense			ENST00000367001.4	1	1	hg19	CCDS1499.1	.	.	.	.	.	.	.	.	.	.	T	34	5.391452	0.95988	.	.	ENSG00000170385	ENST00000367001	T	0.69685	-0.42	4.13	4.13	0.48395	.	0.048025	0.85682	D	0.000000	D	0.88043	0.6331	H	0.98646	4.29	0.80722	D	1	D	0.69078	0.997	D	0.77557	0.99	D	0.92163	0.5737	10	0.87932	D	0	-13.1623	13.3232	0.60444	0.0:0.0:0.0:1.0	.	127	Q9Y6M5	ZNT1_HUMAN	I	127	ENSP00000355968:N127I	ENSP00000355968:N127I	N	-	2	0	SLC30A1	209818198	1.000000	0.71417	1.000000	0.80357	0.996000	0.88848	7.134000	0.77268	1.742000	0.51746	0.374000	0.22700	AAC		TCGA-IB-7886-01A-11D-2154-08	SLC30A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000104738.2	1	0	0	20	68	0	15	0	0	0	1	0	15	2		0	0	0	0	0	2	1	0.999998	20	66	0	13	2		0	0	0	0	15	2	-20.000000	1	1	0	0		1	1	2	3	2.200008	1	0.510000	2.620000	0.609562	0.990000	0.730000	1.000000	1.000000	0.968126	0.990000	1	0.910000	1.000000
PLEKHA3	65977	broad.mit.edu	37	2	179368599	179368599	+	Silent	SNP	A	A	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			A	T	A	A		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr2:179368599A>T	ENST00000234453.5	+	8	1290	c.888A>T	c.(886-888)ccA>ccT	p.P296P		NM_019091.3	NP_061964.3	Q9HB20	PKHA3_HUMAN	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 3			11			OV - Ovarian serous cystadenocarcinoma(117;0.0112)|Epithelial(96;0.0266)|all cancers(119;0.0865)		ATACTCTTCCATCCTTCTCTT	0.363000																								0							SO:0001819	synonymous_variant			ENST00000234453.5	1	1	hg19	CCDS33336.1																																																																																				TCGA-IB-7886-01A-11D-2154-08	PLEKHA3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335241.2	1	0	1	53	307	0	65	1	9.998186e-01	15	61	0	65	2		0	0	0	0	0	2	1	1.000000	53	298	0	66	2		0	0	0	0	65	2	-20.000000	1	1	0	0		1	1	2	3	2.149083	1	0.510000	2.620000	0.607969	0.720000	0.550000	0.940000	0.720000	0.732407	0.720000	0	0.630000	0.820000
TTN	7273	broad.mit.edu	37	2	179537144	179537144	+	Silent	SNP	G	G	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr2:179537144G>A	ENST00000591111.1	-	150	34022	c.33798C>T	c.(33796-33798)ccC>ccT	p.P11266P	TTN-AS1_ENST00000589487.1_RNA|TTN_ENST00000342992.6_Silent_p.P10339P|TTN-AS1_ENST00000585451.1_RNA|TTN-AS1_ENST00000592630.1_RNA|TTN_ENST00000460472.2_Intron|TTN_ENST00000589042.1_Silent_p.P11640P|TTN-AS1_ENST00000589830.1_RNA|TTN-AS1_ENST00000431752.1_RNA|TTN_ENST00000342175.6_Intron|TTN_ENST00000359218.5_Intron			Q8WZ42	TITIN_HUMAN	titin			1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)		CTTTAGCTGGGGGAACAGCTT	0.338000																								0							SO:0001819	synonymous_variant			ENST00000591111.1	1	1	hg19																																																																																					TCGA-IB-7886-01A-11D-2154-08	TTN-019	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000460310.1	0	0	0	485	814	1	192		0	0	0	1	192	2		0	0	0	0	0	2	1	1.000000	482	804	1	191	22		0	0	0	1	192	2	-20.000000	1	1	0	0		1	1	2	3	2.149083	1	0.510000	2.620000	0.607969	0.990000	0.990000	1.000000	1.000000	1.000000	0.990000	1	0.990000	1.000000
SP140L	93349	broad.mit.edu	37	2	231264898	231264898	+	Silent	SNP	C	C	T	rs61734774	by1000genomes	TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			C	T	C	C		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr2:231264898C>T	ENST00000415673.2	+	15	1340	c.1254C>T	c.(1252-1254)tgC>tgT	p.C418C	SP140L_ENST00000243810.6_Silent_p.C418C|SP140L_ENST00000396563.4_Silent_p.C383C|SP140L_ENST00000444636.1_Silent_p.C418C	NM_138402.4	NP_612411.4	Q9H930	SP14L_HUMAN	SP140 nuclear body protein-like			20					TGTTCTGTTGCGACACTTGTT	0.493000																								0							SO:0001819	synonymous_variant			ENST00000415673.2	1	0	hg19	CCDS46538.1																																																																																				TCGA-IB-7886-01A-11D-2154-08	SP140L-009	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000374538.1	1	0	1	98	476	0	91	1	9.998299e-01	15	48	0	91	2		0	0	0	0	0	2	1	1.000000	98	471	0	91	2		0	0	0	0	91	2	-2.934668	1	1	121102	571	62	1	1	2	3	2.149083	1	0.510000	2.620000	0.607969	0.830000	0.680000	1.000000	0.830000	0.842287	0.830000	0	0.750000	0.920000
LYZL4	131375	broad.mit.edu	37	3	42448399	42448399	+	Missense_Mutation	SNP	C	C	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr3:42448399C>A	ENST00000287748.3	-	3	506	c.231G>T	c.(229-231)caG>caT	p.Q77H	LYZL4_ENST00000441172.1_Missense_Mutation_p.Q77H|LYZL4_ENST00000470991.1_5'UTR	NM_144634.2	NP_653235.1	Q96KX0	LYZL4_HUMAN	lysozyme-like 4			3					TGCCACGCATCTGAAAGAGGC	0.577000																								0							SO:0001583	missense			ENST00000287748.3	1	1	hg19	CCDS2697.1	.	.	.	.	.	.	.	.	.	.	C	13.76	2.334712	0.41297	.	.	ENSG00000157093	ENST00000287748;ENST00000441172	T;T	0.78481	-1.18;-1.18	4.31	3.42	0.39159	Lysozyme-like domain (1);	0.000000	0.64402	D	0.000002	D	0.89543	0.6745	H	0.95780	3.72	0.37506	D	0.916944	D	0.89917	1.0	D	0.91635	0.999	D	0.91121	0.4930	10	0.87932	D	0	-19.1719	7.4537	0.27252	0.0:0.8802:0.0:0.1198	.	77	Q96KX0	LYZL4_HUMAN	H	77	ENSP00000287748:Q77H;ENSP00000387897:Q77H	ENSP00000287748:Q77H	Q	-	3	2	LYZL4	42423403	1.000000	0.71417	0.999000	0.59377	0.253000	0.25986	1.310000	0.33551	2.105000	0.64084	0.563000	0.77884	CAG		TCGA-IB-7886-01A-11D-2154-08	LYZL4-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000254729.2	1	0	1	70	225	0	54		0	0	0	0	54	2		0	0	0	0	0	2	1	1.000000	70	224	0	54	2		0	0	0	0	54	2	-20.000000	1	1	0	0		1	1	2	3	1.741544	0	0.510000	2.620000	0.512486	0.930000	0.750000	1.000000	1.000000	0.923743	0.930000	1	0.830000	1.000000
QARS	5859	broad.mit.edu	37	3	49136038	49136038	+	Missense_Mutation	SNP	C	C	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			C	A	C	C		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr3:49136038C>A	ENST00000306125.6	-	20	2288	c.1951G>T	c.(1951-1953)Gtc>Ttc	p.V651F	QARS_ENST00000414533.1_Missense_Mutation_p.V640F|QARS_ENST00000470225.1_5'Flank			P47897	SYQ_HUMAN	glutaminyl-tRNA synthetase			19				L-Glutamine(DB00130)	CTCACCTTGACAACATGCTGC	0.572000																								0							SO:0001583	missense			ENST00000306125.6	1	1	hg19	CCDS2788.1	.	.	.	.	.	.	.	.	.	.	C	14.22	2.470300	0.43942	.	.	ENSG00000172053	ENST00000453392;ENST00000306125;ENST00000414533	T;T	0.24151	1.87;1.87	5.9	-0.927	0.10451	Ribosomal protein L25/Gln-tRNA synthetase, anti-codon-binding domain (1);Ribosomal protein L25/Gln-tRNA synthetase, beta-barrel domain (1);Glutamyl/glutaminyl-tRNA synthetase, class Ib, anti-codon binding domain (1);	0.277142	0.39407	N	0.001378	T	0.39200	0.1069	M	0.89785	3.06	0.80722	D	1	B;B	0.30033	0.266;0.266	B;B	0.42882	0.401;0.401	T	0.26121	-1.0112	10	0.52906	T	0.07	-11.7339	6.1598	0.20358	0.0:0.3728:0.1329:0.4943	.	640;651	B4DWJ2;P47897	.;SYQ_HUMAN	F	171;651;640	ENSP00000307567:V651F;ENSP00000390015:V640F	ENSP00000307567:V651F	V	-	1	0	QARS	49111042	1.000000	0.71417	0.173000	0.22940	0.943000	0.58893	0.624000	0.24462	-0.084000	0.12595	-0.254000	0.11334	GTC		TCGA-IB-7886-01A-11D-2154-08	QARS-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000345689.2	1	0	1	28	104	0	27	1	1	142	309	0	27	2		0	0	0	0	0	2	1	1.000000	27	104	0	27	2		0	0	0	0	27	2	-20.000000	1	1	0	0		1	1	2	3	1.741544	0	0.510000	2.620000	0.512486	0.830000	0.580000	1.000000	1.000000	0.837810	0.830000	0	0.700000	0.990000
FAT1	2195	broad.mit.edu	37	4	187542860	187542860	+	Missense_Mutation	SNP	C	C	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			C	T	C	C		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr4:187542860C>T	ENST00000441802.2	-	10	5089	c.4880G>A	c.(4879-4881)cGa>cAa	p.R1627Q		NM_005245.3	NP_005236.2	Q14517	FAT1_HUMAN	FAT atypical cadherin 1			228					TTGGTTACTTCGATCTAATTC	0.368000										HNSCC(5;0.00058)			Colon(197;1040 2055 4143 4984 49344)											0							SO:0001583	missense			ENST00000441802.2	1	1	hg19	CCDS47177.1	.	.	.	.	.	.	.	.	.	.	C	11.52	1.664646	0.29604	.	.	ENSG00000083857	ENST00000441802;ENST00000260147	T	0.01725	4.67	5.09	4.25	0.50352	Cadherin (4);Cadherin-like (1);	0.062767	0.64402	D	0.000004	T	0.02929	0.0087	M	0.76433	2.335	0.51482	D	0.999925	B	0.29590	0.25	B	0.23018	0.043	T	0.47341	-0.9125	10	0.27785	T	0.31	.	10.879	0.46927	0.0:0.8009:0.0:0.1991	.	1627	Q14517	FAT1_HUMAN	Q	1627;1629	ENSP00000406229:R1627Q	ENSP00000260147:R1629Q	R	-	2	0	FAT1	187779854	1.000000	0.71417	1.000000	0.80357	0.983000	0.72400	1.960000	0.40422	1.514000	0.48869	0.650000	0.86243	CGA		TCGA-IB-7886-01A-11D-2154-08	FAT1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000360209.3	1	0	1	35	109	0	25	1	1	28	86	0	25	2		0	0	0	0	0	2	1	1.000000	35	108	0	25	2		0	0	0	0	25	2	-20.000000	1	1	120792	3	32	1	1	2	3	1.814907	0	0.510000	2.620000	0.523369	0.990000	0.720000	1.000000	1.000000	0.942284	0.990000	1	0.840000	1.000000
CWH43	80157	broad.mit.edu	37	4	49019292	49019292	+	Silent	SNP	T	T	C			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr4:49019292T>C	ENST00000226432.4	+	9	1396	c.1213T>C	c.(1213-1215)Ttg>Ctg	p.L405L	CWH43_ENST00000513409.1_Silent_p.L378L	NM_025087.2	NP_079363.2	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog (S. cerevisiae)			43					TGGTGTGGGATTGTTGGGATT	0.308000																								0							SO:0001819	synonymous_variant			ENST00000226432.4	1	1	hg19	CCDS3486.1																																																																																				TCGA-IB-7886-01A-11D-2154-08	CWH43-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000250496.2	1	0	1	78	219	0	51	0	0	0	1	0	51	2		0	0	0	0	0	2	1	1.000000	78	214	0	50	2		0	0	0	0	51	2	-20.000000	1	1	0	0		1	1	2	3	1.756223	0	0.510000	2.620000	0.514948	0.990000	0.840000	1.000000	1.000000	0.978762	0.990000	1	0.930000	1.000000
ANKHD1	54882	broad.mit.edu	37	5	139918629	139918629	+	Silent	SNP	A	A	G			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			A	G	A	A		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr5:139918629A>G	ENST00000360839.2	+	33	7684	c.7530A>G	c.(7528-7530)aaA>aaG	p.K2510K	ANKHD1_ENST00000544120.1_Silent_p.K834K|ANKHD1-EIF4EBP3_ENST00000532219.1_Silent_p.K2510K|ANKHD1_ENST00000297183.6_Silent_p.K2510K	NM_017747.2	NP_060217.1	Q8IWZ3	ANKH1_HUMAN	ankyrin repeat and KH domain containing 1			60			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		CTATGATAAAAGTTATCCAAA	0.403000																								0							SO:0001819	synonymous_variant			ENST00000360839.2	1	1	hg19	CCDS4225.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	A|A	4.539|4.539	0.100145|0.100145	0.08731|0.08731	.|.	.|.	ENSG00000131503|ENSG00000131503	ENST00000421706|ENST00000435794;ENST00000432301	T|.	0.59638|.	0.25|.	5.87|5.87	4.73|4.73	0.59995|0.59995	.|.	0.000000|.	0.85682|.	D|.	0.000000|.	T|T	0.59445|0.59445	0.2194|0.2194	.|.	.|.	.|.	0.80722|0.80722	D|D	1|1	.|.	.|.	.|.	.|.	.|.	.|.	T|T	0.57619|0.57619	-0.7780|-0.7780	7|4	0.87932|.	D|.	0|.	.|.	8.6414|8.6414	0.33978|0.33978	0.8578:0.0:0.1422:0.0|0.8578:0.0:0.1422:0.0	.|.	.|.	.|.	.|.	R|G	168|992;902	ENSP00000405345:K168R|.	ENSP00000405345:K168R|.	K|S	+|+	2|1	0|0	ANKHD1|ANKHD1	139898813|139898813	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.998000|0.998000	0.95712|0.95712	2.347000|2.347000	0.44036|0.44036	2.244000|2.244000	0.73946|0.73946	0.533000|0.533000	0.62120|0.62120	AAG|AGT		TCGA-IB-7886-01A-11D-2154-08	ANKHD1-001	KNOWN	basic|appris_principal|exp_conf|CCDS	protein_coding	protein_coding	OTTHUMT00000251672.1	1	0	1	73	278	0	39	1	1	34	101	0	39	2		0	0	0	0	0	2	1	1.000000	73	276	0	39	2		0	0	0	0	39	2	-20.000000	1	1	0	0		1	1	2	3	2.196943	1	0.510000	2.620000	0.609562	0.990000	0.820000	1.000000	1.000000	0.970894	0.990000	1	0.910000	1.000000
HMMR	3161	broad.mit.edu	37	5	162901193	162901193	+	Silent	SNP	A	A	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr5:162901193A>T	ENST00000358715.3	+	10	1068	c.1032A>T	c.(1030-1032)tcA>tcT	p.S344S	HMMR_ENST00000432118.2_Silent_p.S258S|HMMR_ENST00000353866.3_Silent_p.S329S|HMMR_ENST00000393915.4_Silent_p.S345S			O75330	HMMR_HUMAN	hyaluronan-mediated motility receptor (RHAMM)			23	Renal(175;0.000281)	Medulloblastoma(196;0.00853)|all_neural(177;0.0408)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	Hyaluronan(DB08818)	AAATTGATTCACTTCTGCAAC	0.303000																								0							SO:0001819	synonymous_variant			ENST00000358715.3	1	1	hg19	CCDS4362.1																																																																																				TCGA-IB-7886-01A-11D-2154-08	HMMR-002	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000252752.1	1	0	1	25	171	0	31	1	9.125242e-01	10	21	0	31	2		0	0	0	0	0	2	1	1.000000	25	171	0	31	2		0	0	0	0	31	2	-12.684170	1	1	0	0		1	1	2	3	2.196943	1	0.510000	2.620000	0.609562	0.630000	0.420000	0.870000	0.630000	0.644012	0.630000	0	0.520000	0.760000
DAB2	1601	broad.mit.edu	37	5	39383071	39383071	+	Silent	SNP	C	C	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			C	T	C	C		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr5:39383071C>T	ENST00000320816.6	-	10	1457	c.990G>A	c.(988-990)ccG>ccA	p.P330P	DAB2_ENST00000512525.1_5'Flank|DAB2_ENST00000545653.1_Silent_p.P309P|DAB2_ENST00000509337.1_Silent_p.P309P|DAB2_ENST00000339788.6_Intron	NM_001343.3	NP_001334.2	P98082	DAB2_HUMAN	Dab, mitogen-responsive phosphoprotein, homolog 2 (Drosophila)			47	all_lung(31;0.000197)		Epithelial(62;0.137)		CATTACTCAGCGGAGTAGACG	0.483000																								0							SO:0001819	synonymous_variant			ENST00000320816.6	1	1	hg19	CCDS34149.1																																																																																				TCGA-IB-7886-01A-11D-2154-08	DAB2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000367014.1	1	0	1	99	486	0	81	1	1	14	157	0	81	2		0	0	0	0	0	2	1	1.000000	99	482	0	79	2		0	0	0	0	81	2	-20.000000	1	1	121412	6	43	1	1	2	3	2.177618	1	0.510000	2.620000	0.609562	0.820000	0.680000	0.980000	0.840000	0.836859	0.820000	0	0.750000	0.910000
GPR98	84059	broad.mit.edu	37	5	89971103	89971103	+	Silent	SNP	C	C	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr5:89971103C>T	ENST00000405460.2	+	24	5250	c.5154C>T	c.(5152-5154)gaC>gaT	p.D1718D	GPR98_ENST00000450321.2_3'UTR	NM_032119.3	NP_115495.3	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98			269		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)			AGCCTAAGGACGCAATGACCC	0.527000																								0							SO:0001819	synonymous_variant			ENST00000405460.2	0	1	hg19	CCDS47246.1																																																																																				TCGA-IB-7886-01A-11D-2154-08	GPR98-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000369993.2	1	0	1	22	173	0	19		0	0	0	0	19	2		0	0	0	0	0	2	1	0.999999	22	173	0	19	2		0	0	0	0	19	2	-20.000000	1	1	120964	11	38	1	1	2	3	2.196943	1	0.510000	2.620000	0.609562	0.560000	0.360000	0.790000	0.550000	0.572702	0.560000	0	0.450000	0.680000
PDE10A	10846	broad.mit.edu	37	6	165809905	165809905	+	Missense_Mutation	SNP	G	G	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr6:165809905G>A	ENST00000366882.1	-	15	1446	c.1292C>T	c.(1291-1293)aCg>aTg	p.T431M	PDE10A_ENST00000354448.4_Missense_Mutation_p.T431M|PDE10A_ENST00000539869.2_Missense_Mutation_p.T441M			Q9Y233	PDE10_HUMAN	phosphodiesterase 10A	p.T431M(1)		71		Breast(66;0.000425)|Prostate(117;0.104)|Ovarian(120;0.221)		Caffeine(DB00201)|Dipyridamole(DB00975)|Papaverine(DB01113)|Tofisopam(DB08811)|Triflusal(DB08814)	CTTTTCCATCGTTACCCGGTA	0.393000													Esophageal Squamous(22;308 615 5753 12038 40624)											1	Substitution - Missense(1)						SO:0001583	missense			ENST00000366882.1	1	1	hg19		.	.	.	.	.	.	.	.	.	.	G	22.0	4.233162	0.79688	.	.	ENSG00000112541	ENST00000366882;ENST00000539869;ENST00000343842;ENST00000354448;ENST00000392126	T;T	0.69806	-0.43;-0.43	5.34	5.34	0.76211	.	1.162770	0.06098	N	0.664795	T	0.79981	0.4540	M	0.68593	2.085	0.80722	D	1	D;D	0.89917	1.0;0.997	D;P	0.80764	0.994;0.882	T	0.71823	-0.4476	10	0.52906	T	0.07	.	19.0469	0.93025	0.0:0.0:1.0:0.0	.	441;431	Q9ULW9;Q9Y233	.;PDE10_HUMAN	M	431;459;441;431;430	ENSP00000355847:T431M;ENSP00000346435:T431M	ENSP00000341187:T441M	T	-	2	0	PDE10A	165729895	1.000000	0.71417	0.148000	0.22405	0.607000	0.37147	9.409000	0.97331	2.508000	0.84585	0.650000	0.86243	ACG		TCGA-IB-7886-01A-11D-2154-08	PDE10A-001	PUTATIVE	basic	protein_coding	protein_coding	OTTHUMT00000043031.1	1	0	1	165	436	0	89	0	5.242315e-01	1	5	0	89	2		0	0	0	0	0	2	1	1.000000	163	432	0	89	2		0	0	0	0	89	2	-20.000000	1	1	0	0		1	1	2	3	1.761470	0	0.510000	2.620000	0.516169	0.990000	0.940000	1.000000	1.000000	0.996794	0.990000	1	0.990000	1.000000
TNXB	7148	broad.mit.edu	37	6	32038177	32038177	+	Missense_Mutation	SNP	C	C	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr6:32038177C>T	ENST00000375244.3	-	14	5206	c.5005G>A	c.(5005-5007)Gcc>Acc	p.A1669T	TNXB_ENST00000375247.2_Missense_Mutation_p.A1669T			P22105	TENX_HUMAN	tenascin XB			8					CCTGGGCTGGCGTCACCTCGG	0.607000																								0							SO:0001583	missense			ENST00000375244.3	1	1	hg19		.	.	.	.	.	.	.	.	.	.	C	9.618	1.133059	0.21041	.	.	ENSG00000168477	ENST00000375244;ENST00000375247	T;T	0.55760	0.66;0.5	4.87	0.759	0.18438	.	0.363230	0.20233	N	0.096454	T	0.08714	0.0216	N	0.17379	0.485	0.09310	N	1	P	0.37352	0.591	B	0.28385	0.089	T	0.28106	-1.0054	10	0.11182	T	0.66	.	4.8372	0.13471	0.1514:0.5711:0.0:0.2775	.	1669	P22105-3	.	T	1669	ENSP00000364393:A1669T;ENSP00000364396:A1669T	ENSP00000364393:A1669T	A	-	1	0	TNXB	32146155	0.028000	0.19301	0.707000	0.30419	0.942000	0.58702	-0.065000	0.11617	0.459000	0.27016	0.609000	0.83330	GCC		TCGA-IB-7886-01A-11D-2154-08	TNXB-001	PUTATIVE	not_organism_supported|basic|appris_candidate_longest	protein_coding	protein_coding	OTTHUMT00000268927.2	1	0	1	28	77	0	23	0	1.830337e-01	0	3	0	23	2		0	0	0	0	0	2	1	1.000000	27	76	0	22	2		0	0	0	0	23	2	-19.996360	1	1	0	0		1	1	2	3	1.740710	0	0.510000	2.620000	0.512486	0.990000	0.740000	1.000000	1.000000	0.959706	0.990000	1	0.880000	1.000000
PIK3CG	5294	broad.mit.edu	37	7	106508944	106508944	+	Missense_Mutation	SNP	C	C	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr7:106508944C>T	ENST00000359195.3	+	2	1248	c.938C>T	c.(937-939)cCg>cTg	p.P313L	PIK3CG_ENST00000496166.1_Missense_Mutation_p.P313L|PIK3CG_ENST00000440650.2_Missense_Mutation_p.P313L	NM_001282427.1|NM_002649.2	NP_001269356.1|NP_002640.2	P48736	PK3CG_HUMAN	phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit gamma			132					CCTCCAGACCCGGCCCTAGAC	0.587000																								0							SO:0001583	missense			ENST00000359195.3	1	1	hg19	CCDS5739.1	.	.	.	.	.	.	.	.	.	.	C	4.728	0.135454	0.09032	.	.	ENSG00000105851	ENST00000440650;ENST00000496166;ENST00000359195	T;T;T	0.68181	-0.31;-0.31;-0.31	5.75	5.75	0.90469	.	0.047482	0.85682	D	0.000000	T	0.62575	0.2439	L	0.48362	1.52	0.80722	D	1	B	0.13594	0.008	B	0.06405	0.002	T	0.55579	-0.8119	10	0.24483	T	0.36	-17.0025	19.9421	0.97168	0.0:1.0:0.0:0.0	.	313	P48736	PK3CG_HUMAN	L	313	ENSP00000392258:P313L;ENSP00000419260:P313L;ENSP00000352121:P313L	ENSP00000352121:P313L	P	+	2	0	PIK3CG	106296180	1.000000	0.71417	0.967000	0.41034	0.035000	0.12851	6.044000	0.71012	2.714000	0.92807	0.561000	0.74099	CCG		TCGA-IB-7886-01A-11D-2154-08	PIK3CG-003	KNOWN	alternative_5_UTR|basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000349294.1	1	0	1	90	315	0	58	0	5.618462e-01	0	8	0	58	2		0	0	0	0	0	2	1	1.000000	90	312	0	58	2		0	0	0	0	58	2	-3.425926	1	1	0	0		1	1	2	3	2.170677	1	0.510000	2.620000	0.609562	0.990000	0.890000	1.000000	1.000000	0.991492	0.990000	1	0.990000	1.000000
ZMIZ2	83637	broad.mit.edu	37	7	44801069	44801069	+	Missense_Mutation	SNP	T	T	G			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			T	G	T	T		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr7:44801069T>G	ENST00000309315.4	+	10	1385	c.1262T>G	c.(1261-1263)tTg>tGg	p.L421W	ZMIZ2_ENST00000441627.1_Missense_Mutation_p.L421W|ZMIZ2_ENST00000413916.1_Missense_Mutation_p.L363W|ZMIZ2_ENST00000265346.7_Missense_Mutation_p.L395W|ZMIZ2_ENST00000433667.1_Missense_Mutation_p.L389W	NM_031449.3	NP_113637.3	Q8NF64	ZMIZ2_HUMAN	zinc finger, MIZ-type containing 2			35					TGTGACGAGTTGCGGCTGACC	0.637000													NSCLC(20;604 852 1948 16908 50522)											0							SO:0001583	missense			ENST00000309315.4	1	1	hg19	CCDS43576.1	.	.	.	.	.	.	.	.	.	.	T	26.5	4.744049	0.89663	.	.	ENSG00000122515	ENST00000413916;ENST00000309315;ENST00000441627;ENST00000433667;ENST00000265346;ENST00000414051	T;T;T;T;T	0.53423	0.62;0.62;0.62;0.62;0.62	4.91	4.91	0.64330	.	0.000000	0.46145	D	0.000305	T	0.66436	0.2789	M	0.65498	2.005	0.80722	D	1	D;D;D	0.89917	1.0;1.0;1.0	D;D;D	0.91635	0.999;0.997;0.999	T	0.70245	-0.4925	10	0.72032	D	0.01	-8.1827	14.3763	0.66879	0.0:0.0:0.0:1.0	.	395;421;363	Q8NF64-2;Q8NF64;Q8NF64-3	.;ZMIZ2_HUMAN;.	W	363;421;421;389;395;421	ENSP00000409648:L363W;ENSP00000311778:L421W;ENSP00000414723:L421W;ENSP00000396601:L389W;ENSP00000265346:L395W	ENSP00000265346:L395W	L	+	2	0	ZMIZ2	44767594	1.000000	0.71417	1.000000	0.80357	0.690000	0.40134	7.408000	0.80041	2.060000	0.61445	0.533000	0.62120	TTG		TCGA-IB-7886-01A-11D-2154-08	ZMIZ2-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000341790.1	1	0	1	61	285	0	73	1	9.999999e-01	23	93	0	73	2		0	0	0	0	0	2	1	1.000000	54	278	0	70	2		0	0	0	0	73	2	-20.000000	1	1	0	0		1	1	2	3	2.154831	1	0.510000	2.620000	0.609562	0.860000	0.670000	1.000000	1.000000	0.869228	0.860000	1	0.760000	0.970000
ABCB1	5243	broad.mit.edu	37	7	87195527	87195527	+	Silent	SNP	A	A	G			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr7:87195527A>G	ENST00000265724.3	-	8	978	c.561T>C	c.(559-561)ggT>ggC	p.G187G	ABCB1_ENST00000543898.1_Silent_p.G123G	NM_000927.4	NP_000918.2	P08183	MDR1_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP), member 1			111	Esophageal squamous(14;0.00164)			Acebutolol(DB01193)|Acetaminophen(DB00316)|Acetylsalicylic acid(DB00945)|Adenosine triphosphate(DB00171)|ado-trastuzumab emtansine(DB05773)|Afatinib(DB08916)|Albendazole(DB00518)|Alfentanil(DB00802)|Alitretinoin(DB00523)|Amantadine(DB00915)|Aminohippurate(DB00345)|Amiodarone(DB01118)|Amitriptyline(DB00321)|Amlodipine(DB00381)|Amprenavir(DB00701)|Amsacrine(DB00276)|Apixaban(DB06605)|Arsenic trioxide(DB01169)|Astemizole(DB00637)|Atazanavir(DB01072)|Atenolol(DB00335)|Atorvastatin(DB01076)|Axitinib(DB06626)|Azelastine(DB00972)|Azithromycin(DB00207)|Benzocaine(DB01086)|Bepridil(DB01244)|Betamethasone(DB00443)|Biperiden(DB00810)|Boceprevir(DB08873)|Bosutinib(DB06616)|Brentuximab vedotin(DB08870)|Bromocriptine(DB01200)|Buprenorphine(DB00921)|Buspirone(DB00490)|Cabazitaxel(DB06772)|Caffeine(DB00201)|Canagliflozin(DB08907)|Candesartan(DB00796)|Captopril(DB01197)|Carbamazepine(DB00564)|Carfilzomib(DB08889)|Carvedilol(DB01136)|Caspofungin(DB00520)|Chloroquine(DB00608)|Chlorpromazine(DB00477)|Chlorpropamide(DB00672)|Chlorprothixene(DB01239)|Cilazapril(DB01340)|Cimetidine(DB00501)|Ciprofloxacin(DB00537)|Cisplatin(DB00515)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Clofazimine(DB00845)|Clomifene(DB00882)|Clomipramine(DB01242)|Clonidine(DB00575)|Clopidogrel(DB00758)|Clotrimazole(DB00257)|Clozapine(DB00363)|Colchicine(DB01394)|Conjugated Estrogens(DB00286)|Crizotinib(DB08865)|Cyclophosphamide(DB00531)|Cyclosporine(DB00091)|Dabigatran etexilate(DB06695)|Dabrafenib(DB08912)|Dactinomycin(DB00970)|Dapagliflozin(DB06292)|Dasatinib(DB01254)|Daunorubicin(DB00694)|Debrisoquin(DB04840)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexamethasone(DB01234)|Dextromethorphan(DB00514)|Diazepam(DB00829)|Diclofenac(DB00586)|Diethylstilbestrol(DB00255)|Digitoxin(DB01396)|Digoxin(DB00390)|Dihydroergotamine(DB00320)|Diltiazem(DB00343)|Dipyridamole(DB00975)|Docetaxel(DB01248)|Domperidone(DB01184)|Doxazosin(DB00590)|Doxepin(DB01142)|Doxorubicin(DB00997)|Dronabinol(DB00470)|Dronedarone(DB04855)|Eletriptan(DB00216)|Enalapril(DB00584)|Enzalutamide(DB08899)|Epinastine(DB00751)|Ergonovine(DB01253)|Ergotamine(DB00696)|Erlotinib(DB00530)|Erythromycin(DB00199)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Etoposide(DB00773)|Etravirine(DB06414)|Ezetimibe(DB00973)|Felodipine(DB01023)|Fentanyl(DB00813)|Fesoterodine(DB06702)|Fexofenadine(DB00950)|Fidaxomicin(DB08874)|Fluconazole(DB00196)|Fluoxetine(DB00472)|Flupentixol(DB00875)|Fluphenazine(DB00623)|Flurazepam(DB00690)|Fluticasone furoate(DB08906)|Fluvoxamine(DB00176)|Gefitinib(DB00317)|Gemcitabine(DB00441)|Glyburide(DB01016)|Gramicidin D(DB00027)|Haloperidol(DB00502)|Hydrocortisone(DB00741)|Ibuprofen(DB01050)|Imatinib(DB00619)|Imipramine(DB00458)|Indacaterol(DB05039)|Indinavir(DB00224)|Indomethacin(DB00328)|Irinotecan(DB00762)|Itraconazole(DB01167)|Ivacaftor(DB08820)|Ivermectin(DB00602)|Ketamine(DB01221)|Ketazolam(DB01587)|Ketoconazole(DB01026)|Lamivudine(DB00709)|Lamotrigine(DB00555)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Lenalidomide(DB00480)|Levetiracetam(DB01202)|Levofloxacin(DB01137)|Levomilnacipran(DB08918)|Levothyroxine(DB00451)|Lidocaine(DB00281)|Linagliptin(DB08882)|Liothyronine(DB00279)|Liotrix(DB01583)|Lisinopril(DB00722)|Lomitapide(DB08827)|Loperamide(DB00836)|Lopinavir(DB01601)|Loratadine(DB00455)|Losartan(DB00678)|Lovastatin(DB00227)|Mannitol(DB00742)|Maprotiline(DB00934)|Mebendazole(DB00643)|Mefloquine(DB00358)|Megestrol acetate(DB00351)|Meprobamate(DB00371)|Methadone(DB00333)|Methotrexate(DB00563)|Methylprednisolone(DB00959)|Metoprolol(DB00264)|Miconazole(DB01110)|Midazolam(DB00683)|Mifepristone(DB00834)|Mirabegron(DB08893)|Mitomycin(DB00305)|Mitoxantrone(DB01204)|Morphine(DB00295)|Mycophenolate mofetil(DB00688)|Nadolol(DB01203)|Naloxone(DB01183)|Naltrexone(DB00704)|Nefazodone(DB01149)|Nelfinavir(DB00220)|Neostigmine(DB01400)|Nicardipine(DB00622)|Nifedipine(DB01115)|Nilotinib(DB04868)|Nisoldipine(DB00401)|Nitrazepam(DB01595)|Nitrendipine(DB01054)|Nizatidine(DB00585)|Norethindrone(DB00717)|Olanzapine(DB00334)|Omeprazole(DB00338)|Paclitaxel(DB01229)|Pantoprazole(DB00213)|Paroxetine(DB00715)|Pazopanib(DB06589)|Perindopril(DB00790)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Pimozide(DB01100)|Pitavastatin(DB08860)|Pomalidomide(DB08910)|Ponatinib(DB08901)|Posaconazole(DB01263)|Pravastatin(DB00175)|Prazosin(DB00457)|Prednisolone(DB00860)|Prednisone(DB00635)|Probenecid(DB01032)|Progesterone(DB00396)|Promethazine(DB01069)|Propafenone(DB01182)|Propranolol(DB00571)|Protriptyline(DB00344)|Quetiapine(DB01224)|Quinacrine(DB01103)|Quinidine(DB00908)|Quinine(DB00468)|Ranitidine(DB00863)|Reboxetine(DB00234)|Regorafenib(DB08896)|Reserpine(DB00206)|Rifampicin(DB01045)|Rilpivirine(DB08864)|Risperidone(DB00734)|Ritonavir(DB00503)|Rivaroxaban(DB06228)|Roxithromycin(DB00778)|Salicylic acid(DB00936)|Saquinavir(DB01232)|Scopolamine(DB00747)|Selegiline(DB01037)|Sertraline(DB01104)|Silodosin(DB06207)|SIMEPREVIR(DB06290)|Simvastatin(DB00641)|Sirolimus(DB00877)|Sitagliptin(DB01261)|SOFOSBUVIR(DB08934)|Sorafenib(DB00398)|Sparfloxacin(DB01208)|Spironolactone(DB00421)|Streptozocin(DB00428)|Sulfinpyrazone(DB01138)|Sumatriptan(DB00669)|Sunitinib(DB01268)|Tacrolimus(DB00864)|Tamoxifen(DB00675)|Telaprevir(DB05521)|Telmisartan(DB00966)|Temsirolimus(DB06287)|Terazosin(DB01162)|Testosterone(DB00624)|Ticagrelor(DB08816)|Timolol(DB00373)|Tolvaptan(DB06212)|Topotecan(DB01030)|Toremifene(DB00539)|Trazodone(DB00656)|Trifluoperazine(DB00831)|Triflupromazine(DB00508)|Trimethoprim(DB00440)|Trimipramine(DB00726)|Troleandomycin(DB01361)|Vecuronium(DB01339)|Venlafaxine(DB00285)|Verapamil(DB00661)|Vinblastine(DB00570)|Vincristine(DB00541)|Vinorelbine(DB00361)|Vismodegib(DB08828)|Voacamine(DB04877)|Zidovudine(DB00495)	CAATTTTGTCACCAATTCCTT	0.363000																								0							SO:0001819	synonymous_variant			ENST00000265724.3	1	1	hg19	CCDS5608.1																																																																																				TCGA-IB-7886-01A-11D-2154-08	ABCB1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000335444.2	1	0	1	91	401	0	62	0	9.170654e-02	0	3	0	62	2		0	0	0	0	0	2	1	1.000000	91	399	0	62	2		0	0	0	0	62	2	-20.000000	1	1	0	0		1	1	2	3	2.173754	1	0.510000	2.620000	0.609562	0.900000	0.740000	1.000000	1.000000	0.907314	0.900000	1	0.820000	1.000000
CDK14	5218	broad.mit.edu	37	7	90356126	90356126	+	Splice_Site	SNP	G	G	C	rs55722725		TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			G	C	G	G		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr7:90356126G>C	ENST00000380050.3	+	3	500	c.369G>C	c.(367-369)tcG>tcC	p.S123S	CDK14_ENST00000406263.1_Splice_Site_p.S77S|CDK14_ENST00000436577.2_Splice_Site_p.R26P|CDK14_ENST00000265741.3_Splice_Site_p.S105S			O94921	CDK14_HUMAN	cyclin-dependent kinase 14			32					GCCCCAGCTCGGTAAGTGCAG	0.463000													GBM(83;1228 1256 8311 16577 31299)											0							SO:0001630	splice_region_variant			ENST00000380050.3	0	0	hg19		.	.	.	.	.	.	.	.	.	.	G	14.74	2.624665	0.46840	.	.	ENSG00000058091	ENST00000436577	T	0.46451	0.87	5.51	4.6	0.57074	.	.	.	.	.	T	0.38585	0.1046	.	.	.	0.19775	N	0.999956	P	0.43287	0.802	B	0.39465	0.3	T	0.38415	-0.9662	8	0.87932	D	0	-2.8377	14.3863	0.66947	0.0:0.0:0.7431:0.2569	.	26	E7EUK8	.	P	26	ENSP00000398936:R26P	ENSP00000398936:R26P	R	+	2	0	CDK14	90194062	1.000000	0.71417	1.000000	0.80357	0.989000	0.77384	1.836000	0.39191	2.588000	0.87417	0.563000	0.77884	CGG		TCGA-IB-7886-01A-11D-2154-08	CDK14-001	KNOWN	basic|appris_principal	protein_coding	protein_coding	OTTHUMT00000059970.5	1	0	1	201	306	0	62	1	1	3	49	0	62	2		0	0	0	0	0	2	1	1.000000	196	303	0	62	2		0	0	0	0	62	2	-20.000000	1	1	0	0		1	1	2	3	2.173754	1	0.510000	2.620000	0.609562	0.990000	0.990000	1.000000	1.000000	1.000000	0.990000	1	0.990000	1.000000
KHDRBS3	10656	broad.mit.edu	37	8	136594144	136594144	+	Missense_Mutation	SNP	G	G	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			G	A	G	G		Valid	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr8:136594144G>A	ENST00000355849.5	+	6	1045	c.635G>A	c.(634-636)cGg>cAg	p.R212Q	KHDRBS3_ENST00000520981.1_Intron	NM_006558.1	NP_006549.1	O75525	KHDR3_HUMAN	KH domain containing, RNA binding, signal transduction associated 3			26	all_epithelial(106;2.85e-16)|all_neural(2;2.72e-06)|Lung NSC(106;3.95e-06)|all_lung(105;1.11e-05)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.247)		GTTACAGCCCGGCCAGTTGGA	0.502000																								0							SO:0001583	missense			ENST00000355849.5	1	1	hg19	CCDS6374.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	15.81|15.81	2.942837|2.942837	0.53079|0.53079	.|.	.|.	ENSG00000131773|ENSG00000131773	ENST00000524282|ENST00000355849;ENST00000524199	.|T	.|0.45668	.|0.89	5.98|5.98	5.98|5.98	0.97165|0.97165	.|.	.|0.364746	.|0.32372	.|N	.|0.006188	T|T	0.34629|0.34629	0.0904|0.0904	L|L	0.40543|0.40543	1.245|1.245	0.80722|0.80722	D|D	1|1	.|B;P	.|0.44816	.|0.431;0.844	.|B;B	.|0.37833	.|0.099;0.259	T|T	0.12400|0.12400	-1.0549|-1.0549	5|10	.|0.46703	.|T	.|0.11	-17.1845|-17.1845	14.227|14.227	0.65866|0.65866	0.0:0.2458:0.7542:0.0|0.0:0.2458:0.7542:0.0	.|.	.|212;212	.|O75525-2;O75525	.|.;KHDR3_HUMAN	S|Q	127|212;184	.|ENSP00000348108:R212Q	.|ENSP00000348108:R212Q	G|R	+|+	1|2	0|0	KHDRBS3|KHDRBS3	136663326|136663326	1.000000|1.000000	0.71417|0.71417	1.000000|1.000000	0.80357|0.80357	0.822000|0.822000	0.46500|0.46500	4.526000|4.526000	0.60566|0.60566	2.843000|2.843000	0.97960|0.97960	0.585000|0.585000	0.79938|0.79938	GGC|CGG		TCGA-IB-7886-01A-11D-2154-08	KHDRBS3-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000377529.1	1	0	1	85	527	0	79	1	9.912226e-01	2	45	0	79	2		0	0	0	0	0	2	1	1.000000	84	518	0	79	2		0	0	0	0	79	2	-3.318814	1	1	121410	2	37	1	2	2	4	2.524000	1	0.510000	2.620000	0.665323	0.800000	0.640000	1.000000	0.800000	0.817499	0.800000	0	0.720000	0.910000
COL22A1	169044	broad.mit.edu	37	8	139629165	139629165	+	Missense_Mutation	SNP	C	C	T			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr8:139629165C>T	ENST00000303045.6	-	54	4308	c.3862G>A	c.(3862-3864)Ggt>Agt	p.G1288S	COL22A1_ENST00000341807.4_5'UTR|COL22A1_ENST00000435777.1_Missense_Mutation_p.G1268S	NM_152888.1	NP_690848.1	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1			211	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)		ACCCGGGGACCGGGTGCACCA	0.587000										HNSCC(7;0.00092)														0							SO:0001583	missense			ENST00000303045.6	1	1	hg19	CCDS6376.1	.	.	.	.	.	.	.	.	.	.	C	13.49	2.252523	0.39797	.	.	ENSG00000169436	ENST00000303045;ENST00000435777;ENST00000545577	D;D	0.99329	-5.75;-5.75	4.35	4.35	0.52113	.	0.281024	0.24791	N	0.035575	D	0.99704	0.9887	H	0.99634	4.67	0.48236	D	0.999613	D;D	0.89917	1.0;1.0	D;D	0.91635	0.999;0.999	D	0.97160	0.9837	10	0.87932	D	0	.	12.6914	0.56976	0.0:1.0:0.0:0.0	.	1268;1288	Q8NFW1-2;Q8NFW1	.;COMA1_HUMAN	S	1288;1268;981	ENSP00000303153:G1288S;ENSP00000387655:G1268S	ENSP00000303153:G1288S	G	-	1	0	COL22A1	139698347	0.997000	0.39634	0.990000	0.47175	0.154000	0.21943	3.554000	0.53720	2.709000	0.92574	0.555000	0.69702	GGT		TCGA-IB-7886-01A-11D-2154-08	COL22A1-001	KNOWN	basic|appris_candidate_longest|CCDS	protein_coding	protein_coding	OTTHUMT00000315905.2	1	0	1	79	411	0	76	1	8.724390e-01	2	19	0	76	2		0	0	0	0	0	2	1	1.000000	79	407	0	76	2		0	0	0	0	76	2	-2.973463	1	1	121412	1	32	1	2	2	4	2.524000	1	0.510000	2.620000	0.665323	0.930000	0.740000	1.000000	1.000000	0.924188	0.930000	1	0.830000	1.000000
LMX1B	4010	broad.mit.edu	37	9	129455511	129455511	+	Missense_Mutation	SNP	G	G	A			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr9:129455511G>A	ENST00000373474.4	+	4	657	c.650G>A	c.(649-651)cGg>cAg	p.R217Q	LMX1B_ENST00000561065.1_Missense_Mutation_p.R194Q|LMX1B_ENST00000355497.5_Missense_Mutation_p.R217Q|LMX1B_ENST00000526117.1_Missense_Mutation_p.R217Q|LMX1B_ENST00000425646.2_Missense_Mutation_p.R194Q			O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta			15					AAGGACCCGCGGAGGCCCAAG	0.652000									Nail-Patella Syndrome				Pancreas(110;1796 2278 18357 20466)											0							SO:0001583	missense	Familial Cancer Database	Osteo-Onychodysplasia, Turner-Kieser syndrome, Fong disease	ENST00000373474.4	0	1	hg19	CCDS55342.1	.	.	.	.	.	.	.	.	.	.	G	29.2	4.989886	0.93106	.	.	ENSG00000136944	ENST00000526117;ENST00000373474;ENST00000355497;ENST00000425646	T;T;D;T	0.95853	-1.08;-1.08;-3.83;-1.08	4.97	4.97	0.65823	Homeodomain-related (1);Homeobox (1);Homeodomain-like (1);	0.000000	0.85682	D	0.000000	D	0.93180	0.7828	L	0.51422	1.61	0.80722	D	1	P;P;D	0.55800	0.8;0.88;0.973	B;B;B	0.44108	0.206;0.164;0.441	D	0.91782	0.5436	10	0.10636	T	0.68	.	17.2153	0.86941	0.0:0.0:1.0:0.0	.	194;194;217	B7ZLH2;O60663;F8VYP0	.;LMX1B_HUMAN;.	Q	217;217;217;194	ENSP00000436930:R217Q;ENSP00000362573:R217Q;ENSP00000347684:R217Q;ENSP00000390923:R194Q	ENSP00000347684:R217Q	R	+	2	0	LMX1B	128495332	1.000000	0.71417	0.882000	0.34594	0.936000	0.57629	6.381000	0.73163	2.299000	0.77371	0.462000	0.41574	CGG		TCGA-IB-7886-01A-11D-2154-08	LMX1B-002	KNOWN	basic|CCDS	protein_coding	protein_coding	OTTHUMT00000054123.2	1	0	0	7	81	0	17		0	0	0	0	17	2		0	0	0	0	0	2	1	0.982073	7	81	0	17	2		0	0	0	0	17	2	-11.746420	1	1	0	0		1	0	4	4	1.918591	1	0.510000	2.620000	0.563435	0.400000	0.170000	1.000000	0.350000	0.494489	0.400000	0	0.260000	1.000000
COL5A1	1289	broad.mit.edu	37	9	137653805	137653805	+	Missense_Mutation	SNP	C	C	T	rs149912828		TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			C	T	C	C		Inconclusive	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr9:137653805C>T	ENST00000371817.3	+	19	2384	c.1970C>T	c.(1969-1971)cCg>cTg	p.P657L		NM_000093.3|NM_001278074.1	NP_000084.3|NP_001265003.1	P20908	CO5A1_HUMAN	collagen, type V, alpha 1			115		Myeloproliferative disorder(178;0.0341)			CCAGGACCTCCGGGAGACGAT	0.597000																								0							SO:0001583	missense			ENST00000371817.3	1	1	hg19	CCDS6982.1	.	.	.	.	.	.	.	.	.	.	c	9.891	1.204150	0.22205	0.0	1.16E-4	ENSG00000130635	ENST00000371817	D	0.96685	-4.09	4.53	4.53	0.55603	.	0.152829	0.44688	U	0.000431	D	0.97835	0.9289	M	0.82823	2.61	0.51233	D	0.99991	D	0.89917	1.0	D	0.74023	0.982	D	0.98448	1.0590	10	0.87932	D	0	.	12.7642	0.57383	0.0:1.0:0.0:0.0	.	657	P20908	CO5A1_HUMAN	L	657	ENSP00000360882:P657L	ENSP00000360882:P657L	P	+	2	0	COL5A1	136793626	0.972000	0.33761	0.573000	0.28510	0.014000	0.08584	5.210000	0.65214	2.067000	0.61834	0.556000	0.70494	CCG		TCGA-IB-7886-01A-11D-2154-08	COL5A1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000054954.2	1	0	1	48	324	0	82	0	1	0	250	0	82	2		0	0	0	0	0	2	1	1.000000	48	321	0	82	2		0	0	0	0	82	2	-3.075841	1	1	121392	6	41	1	0	3	3	1.907760	1	0.510000	2.620000	0.552246	0.580000	0.420000	1.000000	0.550000	0.659994	0.580000	0	0.490000	1.000000
CDKN2A	1029	broad.mit.edu	37	9	21971120	21971120	+	Nonsense_Mutation	SNP	G	G	A	rs121913388		TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			G	A	G	G		Valid	Somatic	Phase_I	WXS	targeted			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chr9:21971120G>A	ENST00000304494.5	-	2	508	c.238C>T	c.(238-240)Cga>Tga	p.R80*	CDKN2A_ENST00000530628.2_Missense_Mutation_p.P94L|CDKN2A_ENST00000498124.1_Nonsense_Mutation_p.R80*|CDKN2A_ENST00000579755.1_Missense_Mutation_p.P94L|CDKN2A_ENST00000494262.1_Nonsense_Mutation_p.R29*|CDKN2A_ENST00000497750.1_Nonsense_Mutation_p.R29*|CDKN2A_ENST00000578845.2_Nonsense_Mutation_p.R29*|CDKN2A_ENST00000446177.1_Nonsense_Mutation_p.R80*|CDKN2A_ENST00000361570.3_Missense_Mutation_p.P135L|CDKN2A_ENST00000498628.2_Nonsense_Mutation_p.R29*|CDKN2A_ENST00000579122.1_Nonsense_Mutation_p.R80*|RP11-145E5.5_ENST00000404796.2_Intron|CDKN2A_ENST00000479692.2_Nonsense_Mutation_p.R29*	NM_000077.4	NP_000068.1	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A	p.0?(1315)|p.R80*(100)|p.?(44)|p.P135L(7)|p.L65fs*38(1)|p.T79fs*37(1)|p.0(1)|p.A76fs*64(1)|p.T79fs*65(1)|p.E61_L94del(1)|p.A68fs*3(1)|p.R80fs*34(1)		4199		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)			TGCACGGGTCGGGTGAGAGTG	0.726000	R80*(HSC4_UPPER_AERODIGESTIVE_TRACT)|R80*(MEWO_SKIN)	17								HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)														1474	Whole gene deletion(1316)|Substitution - Nonsense(100)|Unknown(44)|Substitution - Missense(7)|Deletion - Frameshift(6)|Deletion - In frame(1)	GRCh37	CM014695	CDKN2A	M	rs121913388	SO:0001587	stop_gained			ENST00000304494.5	0	1	hg19	CCDS6510.1	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	.|.	G|G	39|39	7.328457|7.328457	0.98214|0.98214	.|.	.|.	ENSG00000147889|ENSG00000147889	ENST00000361570;ENST00000530628|ENST00000304494;ENST00000446177	D;D|.	0.86497|.	-2.13;-2.02|.	5.93|5.93	5.01|5.01	0.66863|0.66863	.|.	0.000000|.	0.37136|.	N|.	0.002233|.	T|.	0.44561|.	0.1299|.	L|L	0.36672|0.36672	1.1|1.1	0.47511|0.47511	D|D	0.999443|0.999443	D|.	0.59357|.	0.985|.	B|.	0.40602|.	0.334|.	T|.	0.34825|.	-0.9813|.	10|.	0.13108|0.02654	T|T	0.6|1	-2.989|-2.989	8.7197|8.7197	0.34434|0.34434	0.0759:0.0:0.7715:0.1526|0.0759:0.0:0.7715:0.1526	.|.	135|.	Q8N726|.	CD2A2_HUMAN|.	L|X	135;94|80	ENSP00000355153:P135L;ENSP00000432664:P94L|.	ENSP00000355153:P135L|ENSP00000307101:R80X	P|R	-|-	2|1	0|2	CDKN2A|CDKN2A	21961120|21961120	0.995000|0.995000	0.38212|0.38212	1.000000|1.000000	0.80357|0.80357	0.899000|0.899000	0.52679|0.52679	2.363000|2.363000	0.44178|0.44178	1.464000|1.464000	0.47987|0.47987	0.650000|0.650000	0.86243|0.86243	CCG|CGA		TCGA-IB-7886-01A-11D-2154-08	CDKN2A-001	KNOWN	basic|appris_candidate|CCDS	protein_coding	protein_coding	OTTHUMT00000051915.1	1	0	0	44	58	0	27		0	0	0	0	27	2	1	1	65	52	0	129	2	1	1.000000	36	47	0	22	2		0	0	0	0	27	2	-10.111250	1	1	0	0		1	0	2	2	1.611550	1	0.510000	2.620000	0.510000	0.990000	0.990000	1.000000	1.000000	0.999998	0.990000	1	0.990000	1.000000
ARMCX1	51309	broad.mit.edu	37	X	100808322	100808322	+	Missense_Mutation	SNP	A	A	G			TCGA-IB-7886-01A-11D-2154-08	TCGA-IB-7886-10A-01D-2154-08			A	G	A	A		Inconclusive	Somatic	Phase_I	WXS	RNA			Illumina GAIIx	0ae0d66a-f390-4cd4-aa84-f35e8980a52d	f101fa1b-c3a8-40a0-b4ea-812861d7e7c9	g.chrX:100808322A>G	ENST00000372829.3	+	4	780	c.409A>G	c.(409-411)Acc>Gcc	p.T137A		NM_016608.1	NP_057692.1	Q9P291	ARMX1_HUMAN	armadillo repeat containing, X-linked 1			19					TGGGAACAGGACCCTTGCACC	0.612000																								0							SO:0001583	missense			ENST00000372829.3	1	1	hg19	CCDS14487.1	.	.	.	.	.	.	.	.	.	.	a	9.041	0.989764	0.18966	.	.	ENSG00000126947	ENST00000372829	T	0.28454	1.61	3.86	1.39	0.22231	.	0.509670	0.16809	N	0.198655	T	0.11153	0.0272	N	0.12182	0.205	0.24652	N	0.993514	B	0.06786	0.001	B	0.04013	0.001	T	0.33523	-0.9865	10	0.02654	T	1	-1.2837	3.4353	0.07444	0.6406:0.2323:0.1271:0.0	.	137	Q9P291	ARMX1_HUMAN	A	137	ENSP00000361917:T137A	ENSP00000361917:T137A	T	+	1	0	ARMCX1	100694978	0.868000	0.29978	0.977000	0.42913	0.890000	0.51754	0.859000	0.27858	0.166000	0.19597	0.451000	0.29950	ACC		TCGA-IB-7886-01A-11D-2154-08	ARMCX1-001	KNOWN	basic|appris_principal|CCDS	protein_coding	protein_coding	OTTHUMT00000057561.1	1	0	1	101	266	0	52	0	9.997161e-01	0	34	0	52	2		0	0	0	0	0	2	1	1.000000	101	260	0	52	2		0	0	0	0	52	2	-20.000000	1	1	0	0		1	0	1	1			0.510000	2.620000	0.510000	0.530000	0.440000	0.630000	0.540000	0.540591	0.530000	0	0.480000	0.580000
