Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	validation_method	t_ref_count	validation_status	validation_tumor_sample	t_alt_count	validation_alt_allele	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
PSD4	23550	broad.mit.edu	37	2	113940985	113940985	+	Missense_Mutation	SNP	C	T	T	rs148062987	byFrequency	TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr2:113940985C>T	uc002tjc.3	+	1	1135	c.952C>T	c.(952-954)Cct>Tct	p.P318S	PSD4_uc002tjd.3_5'UTR|PSD4_uc002tje.3_Missense_Mutation_p.P317S|PSD4_uc002tjf.3_5'Flank	NM_012455	NP_036587	Q8NDX1	PSD4_HUMAN	Homo sapiens pleckstrin and Sec7 domain containing 4 (PSD4), mRNA.	318					regulation of ARF protein signal transduction	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			cervix(1)|endometrium(2)|large_intestine(4)|lung(13)|ovary(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29						GCATTGTACCCCTCCATTCCC	0.617000														114			4		0	0	1	0	0
FAM184A	79632	broad.mit.edu	37	6	119281278	119281278	+	Missense_Mutation	SNP	A	G	G			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr6:119281278A>G	uc003pyj.3	-	17	3761	c.3413T>C	c.(3412-3414)tTc>tCc	p.F1138S	FAM184A_uc003pyk.4_Missense_Mutation_p.F969S|FAM184A_uc003pyl.4_Missense_Mutation_p.F934S|FAM184A_uc003pyi.3_Non-coding_Transcript	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	Homo sapiens family with sequence similarity 184, member A (FAM184A), transcript variant 1, mRNA.	1138										breast(2)|central_nervous_system(2)|endometrium(2)|kidney(5)|large_intestine(19)|lung(13)|ovary(2)|pancreas(1)|prostate(1)|skin(5)	52						TCAGAATGTGAAGTACCGGGC	0.428000														35			3		0	0	1	0	0
C2CD3	26005	broad.mit.edu	37	11	73820090	73820090	+	Missense_Mutation	SNP	G	T	T			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr11:73820090G>T	uc001ouu.2	-	11	2178	c.1951C>A	c.(1951-1953)Cca>Aca	p.P651T		NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	Homo sapiens C2 calcium-dependent domain containing 3 (C2CD3), mRNA.	651						centrosome				NS(1)|breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(16)|lung(26)|ovary(4)|pancreas(2)|prostate(1)|skin(3)	64	Breast(11;4.16e-06)					TTTTTCTGTGGAGTTTTCTTT	0.398000														124			4		1.23904e-05	1.27776e-05	1	1	0
ABCC8	6833	broad.mit.edu	37	11	17483365	17483365	+	Missense_Mutation	SNP	A	G	G			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr11:17483365A>G	uc001mnc.3	-	4	713	c.587T>C	c.(586-588)aTc>aCc	p.I196T	ABCC8_uc010rcy.1_Missense_Mutation_p.I196T	NM_000352	NP_000343	Q09428	ABCC8_HUMAN	Homo sapiens ATP-binding cassette, sub-family C (CFTR/MRP), member 8 (ABCC8), mRNA.	196					carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			NS(1)|breast(1)|cervix(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(14)|lung(38)|ovary(1)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	67				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	CTTGAAGAAGATGTATCTCTG	0.572000														77			4		0	0	1	0	0
ZBTB20	26137	broad.mit.edu	37	3	114070436	114070436	+	Silent	SNP	T	C	C			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr3:114070436T>C	uc003ebi.3	-	3	669	c.489A>G	c.(487-489)ctA>ctG	p.L163L	ZBTB20_uc003ebj.3_Silent_p.L90L|ZBTB20_uc010hqp.3_Silent_p.L90L|ZBTB20_uc003ebk.3_Silent_p.L90L|ZBTB20_uc003ebl.3_Silent_p.L90L|ZBTB20_uc003ebm.3_Silent_p.L90L|ZBTB20_uc003ebn.3_Silent_p.L90L|ZBTB20-AS1_uc003ebo.2_5'Flank	NM_001164342	NP_056457	Q9HC78	ZBT20_HUMAN	Homo sapiens zinc finger and BTB domain containing 20 (ZBTB20), transcript variant 1, mRNA.	163	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|central_nervous_system(1)|endometrium(10)|kidney(2)|large_intestine(8)|lung(15)|ovary(4)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	48				LUSC - Lung squamous cell carcinoma(41;0.0581)|Lung(219;0.191)		GCGAGACCCGTAGCACGCCGC	0.567000														68			3		0	0	1	0	0
NLRP9	338321	broad.mit.edu	37	19	56243852	56243852	+	Nonsense_Mutation	SNP	G	A	A			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr19:56243852G>A	uc002qly.3	-	1	1373	c.1345C>T	c.(1345-1347)Caa>Taa	p.Q449*		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	Homo sapiens NLR family, pyrin domain containing 9 (NLRP9), mRNA.	449	NACHT.					cytoplasm	ATP binding	p.Q449K(2)		NS(2)|breast(5)|cervix(1)|endometrium(7)|kidney(8)|large_intestine(15)|lung(21)|ovary(2)|prostate(3)|skin(7)|urinary_tract(3)	74		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		CAAAACTCTTGGATACACAGA	0.502000														64			4		0	0	1	0	0
PCDH11Y	83259	broad.mit.edu	37	Y	4967267	4967267	+	Missense_Mutation	SNP	C	T	T			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chrY:4967267C>T	uc004fqo.3	+	1	2382	c.1648C>T	c.(1648-1650)Cgt>Tgt	p.R550C	PCDH11Y_uc010nwg.1_Missense_Mutation_p.R539C|PCDH11Y_uc004fql.1_Missense_Mutation_p.R539C|PCDH11Y_uc004fqm.1_Missense_Mutation_p.R539C|PCDH11Y_uc004fqn.1_Missense_Mutation_p.R550C|PCDH11Y_uc004fqp.1_Missense_Mutation_p.R321C	NM_032973	NP_116755	Q9BZA8	PC11Y_HUMAN	Homo sapiens protocadherin 11 Y-linked (PCDH11Y), transcript variant c, mRNA.	550	Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			autonomic_ganglia(1)|kidney(2)|large_intestine(7)|lung(14)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	27						CCTGGATCGTCGTACAGGCAT	0.438000														297			5		0	0	1	0	0
KIAA1377	57562	broad.mit.edu	37	11	101793446	101793446	+	Missense_Mutation	SNP	G	A	A	rs142032267		TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr11:101793446G>A	uc001pgm.3	+	1	473	c.203G>A	c.(202-204)cGa>cAa	p.R68Q	KIAA1377_uc001pgn.3_Missense_Mutation_p.R24Q	NM_020802	NP_065853	Q9P2H0	K1377_HUMAN	Homo sapiens KIAA1377 (KIAA1377), mRNA.	68							protein binding	p.R68L(2)|p.R68*(1)		breast(4)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(12)|lung(18)|ovary(1)|prostate(4)|skin(3)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(2)	53	all_epithelial(12;0.0104)	Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00931)		BRCA - Breast invasive adenocarcinoma(274;0.038)		AAAATATGTCGAAATCGAGCA	0.303000														115			28		0	0	1	0	0
TRRAP	8295	broad.mit.edu	37	7	98522828	98522828	+	Missense_Mutation	SNP	G	T	T			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr7:98522828G>T	uc003upp.3	+	21	3126	c.2917G>T	c.(2917-2919)Gcc>Tcc	p.A973S	TRRAP_uc011kis.2_Missense_Mutation_p.A973S|TRRAP_uc003upr.3_Missense_Mutation_p.A665S	NM_001244580	NP_001231509	Q9Y4A5	TRRAP_HUMAN	Homo sapiens transformation/transcription domain-associated protein (TRRAP), transcript variant 1, mRNA.	973					histone H2A acetylation|histone H4 acetylation|histone deubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|PCAF complex|STAGA complex|transcription factor TFTC complex	phosphotransferase activity, alcohol group as acceptor|protein binding|transcription cofactor activity	p.A973S(3)|p.A973A(1)		NS(3)|breast(1)|central_nervous_system(10)|endometrium(16)|kidney(7)|large_intestine(36)|liver(1)|lung(54)|ovary(10)|pancreas(1)|prostate(8)|skin(16)|stomach(5)|upper_aerodigestive_tract(6)|urinary_tract(2)	176	all_cancers(62;6.96e-09)|all_epithelial(64;4.86e-09)|Lung NSC(181;0.01)|all_lung(186;0.016)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)			CTTCCTGGTGGCCATGATGAG	0.562000														154			5		2.0095e-06	2.13914e-06	1	1	0
ITGA5	3678	broad.mit.edu	37	12	54812840	54812840	+	Missense_Mutation	SNP	G	T	T			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr12:54812840G>T	uc001sga.3	-	0	211	c.143C>A	c.(142-144)gCc>gAc	p.A48D	ITGA5_uc010sow.1_Non-coding_Transcript|ITGA5_uc009znp.1_Non-coding_Transcript	NM_002205	NP_002196	P08648	ITA5_HUMAN	Homo sapiens integrin, alpha 5 (fibronectin receptor, alpha polypeptide) (ITGA5), mRNA.	48					angiogenesis|axon guidance|blood coagulation|integrin-mediated signaling pathway|interspecies interaction between organisms|leukocyte migration|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway|wound healing, spreading of epidermal cells	alphav-beta3 integrin-vitronectin complex|integrin complex|ruffle	platelet-derived growth factor receptor binding|receptor activity|vascular endothelial growth factor receptor 2 binding			NS(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(11)|ovary(2)|prostate(1)|upper_aerodigestive_tract(2)	34						TACTGCTGGGGCCTCCGCGTC	0.706000														140			11		1.58986e-06	1.74885e-06	1	1	0
GLP1R	2740	broad.mit.edu	37	6	39040661	39040661	+	Missense_Mutation	SNP	A	G	G			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr6:39040661A>G	uc003ooj.4	+	5	593	c.533A>G	c.(532-534)tAc>tGc	p.Y178C	GLP1R_uc003ooh.2_Non-coding_Transcript|GLP1R_uc003ooi.2_Non-coding_Transcript	NM_002062	NP_002053	P43220	GLP1R_HUMAN	Homo sapiens glucagon-like peptide 1 receptor (GLP1R), mRNA.	178					activation of adenylate cyclase activity|cAMP-mediated signaling|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	glucagon receptor activity|peptide receptor activity, G-protein coupled			breast(5)|endometrium(3)|kidney(1)|large_intestine(8)|lung(9)|pancreas(1)|prostate(1)|skin(1)|stomach(2)	31					Exenatide(DB01276)|Glucagon recombinant(DB00040)	ACCAGGAACTACATCCACCTG	0.557000														61			23		0	0	1	0	0
FBXO21	23014	broad.mit.edu	37	12	117624289	117624289	+	Nonsense_Mutation	SNP	C	A	A			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr12:117624289C>A	uc001twk.3	-	2	502	c.463G>T	c.(463-465)Gaa>Taa	p.E155*	FBXO21_uc001twj.3_Nonsense_Mutation_p.E155*|FBXO21_uc009zwq.3_Nonsense_Mutation_p.E155*	NM_033624	NP_296373	O94952	FBX21_HUMAN	Homo sapiens F-box protein 21 (FBXO21), transcript variant 1, mRNA.	155					ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	ubiquitin-protein ligase activity			breast(4)|endometrium(3)|kidney(2)|large_intestine(6)|lung(8)|pancreas(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	29	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0291)		TACCTTCCTTCCATATTTAGG	0.388000														64			5		5.4927e-09	6.47354e-09	1	1	0
DOCK3	1795	broad.mit.edu	37	3	51251628	51251628	+	Missense_Mutation	SNP	G	A	A			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr3:51251628G>A	uc011bds.2	+	13	1225	c.1202G>A	c.(1201-1203)aGg>aAg	p.R401K		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	Homo sapiens dedicator of cytokinesis 3 (DOCK3), mRNA.	401						cytoplasm	GTP binding|GTPase binding|SH3 domain binding|guanyl-nucleotide exchange factor activity			breast(2)|cervix(1)|endometrium(10)|kidney(4)|lung(22)|prostate(5)|urinary_tract(1)	45				BRCA - Breast invasive adenocarcinoma(193;0.00105)|KIRC - Kidney renal clear cell carcinoma(197;0.00449)|Kidney(197;0.00518)		ATATTTAATAGGGGATTGGCA	0.413000														39			70		0	0	1	0	0
FAM149B1	317662	broad.mit.edu	37	10	74952370	74952370	+	Silent	SNP	A	G	G			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr10:74952370A>G	uc009xqz.3	+	3	560	c.339A>G	c.(337-339)gaA>gaG	p.E113E	FAM149B1_uc010qkf.2_Silent_p.E91E|FAM149B1_uc001jtq.3_Silent_p.E7E	NM_173348	NP_775483	Q96BN6	F149B_HUMAN	Homo sapiens family with sequence similarity 149, member B1 (FAM149B1), mRNA.	113										breast(2)|endometrium(1)|kidney(1)|stomach(3)	7						CCATTGATGAACTCTTGTATG	0.438000														101			4		0	0	1	0	0
BAI1	575	broad.mit.edu	37	8	143562971	143562971	+	Missense_Mutation	SNP	A	G	G			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr8:143562971A>G	uc003ywm.3	+	9	2212	c.2029A>G	c.(2029-2031)Acc>Gcc	p.T677A		NM_001702	NP_001693	O14514	BAI1_HUMAN	Homo sapiens brain-specific angiogenesis inhibitor 1 (BAI1), mRNA.	677					axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			NS(1)|breast(3)|central_nervous_system(2)|cervix(2)|endometrium(4)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(2)|lung(28)|ovary(4)|pancreas(1)|prostate(7)	57	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					TCAGGACGGGACCAGCTACAG	0.627000														110			4		0	0	1	0	0
CRAMP1L	57585	broad.mit.edu	37	16	1705979	1705979	+	Silent	SNP	A	G	G			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr16:1705979A>G	uc010uvh.2	+	8	1221	c.1221A>G	c.(1219-1221)acA>acG	p.T407T	CRAMP1L_uc002cmf.3_Intron	NM_020825	NP_065876	Q96RY5	CRML_HUMAN	Homo sapiens Crm, cramped-like (Drosophila) (CRAMP1L), mRNA.	407						nucleus	DNA binding	p.L406R(1)		NS(2)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(6)|kidney(1)|large_intestine(3)|lung(6)|pancreas(1)	22						GTACACTGACACCGCTGCCGG	0.647000														146			4		0	0	1	0	0
EEF1A2	1917	broad.mit.edu	37	20	62121830	62121830	+	Splice_Site	SNP	A	C	C			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr20:62121830A>C	uc002yfe.1	-	6	1195	c.1029_splice	c.e6+1	p.Q343_splice		NM_001958	NP_001949	Q05639	EF1A2_HUMAN	Homo sapiens eukaryotic translation elongation factor 1 alpha 2 (EEF1A2), mRNA.	343						nucleus	GTP binding|GTPase activity|protein binding|translation elongation factor activity			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(1)|lung(14)|stomach(1)	20	all_cancers(38;9.45e-12)		BRCA - Breast invasive adenocarcinoma(10;1.22e-05)			GCAGCCCCCCACCTGGGAGGT	0.667000														32			6		0	0	1	0	0
CHD3	1107	broad.mit.edu	37	17	7793910	7793910	+	Missense_Mutation	SNP	T	C	C			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr17:7793910T>C	uc002gjd.2	+	2	414	c.412T>C	c.(412-414)Tct>Cct	p.S138P	CHD3_uc002gje.2_Missense_Mutation_p.S79P|CHD3_uc002gjf.2_Missense_Mutation_p.S79P|CHD3_uc002gjg.1_5'Flank	NM_001005271	NP_001005271	Q12873	CHD3_HUMAN	Homo sapiens chromodomain helicase DNA binding protein 3 (CHD3), transcript variant 3, mRNA.	79					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	NuRD complex|microtubule organizing center	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|zinc ion binding			breast(2)|central_nervous_system(1)|cervix(2)|endometrium(11)|kidney(6)|large_intestine(13)|liver(2)|lung(14)|ovary(1)|pancreas(1)|prostate(7)|skin(3)|urinary_tract(2)	65		Prostate(122;0.202)				GGAATTTGGTTCTGAGCGAGA	0.448000														69			3		0	0	1	0	0
GTF3C5	9328	broad.mit.edu	37	9	135929828	135929828	+	Missense_Mutation	SNP	A	G	G			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr9:135929828A>G	uc004ccj.4	+	6	1359	c.1022A>G	c.(1021-1023)aAg>aGg	p.K341R	GTF3C5_uc010mzz.2_Missense_Mutation_p.K216R|GTF3C5_uc004cci.4_Missense_Mutation_p.K341R	NM_001122823	NP_001116295	Q9Y5Q8	TF3C5_HUMAN	Homo sapiens general transcription factor IIIC, polypeptide 5, 63kDa (GTF3C5), transcript variant 1, mRNA.	341						transcription factor TFIIIC complex	DNA binding|protein binding			endometrium(5)|kidney(1)|large_intestine(7)|lung(6)|pancreas(1)|prostate(1)	21				OV - Ovarian serous cystadenocarcinoma(145;4.01e-06)|Epithelial(140;4e-05)		GTCAAAGCAAAGCGCAGCACC	0.602000														135			4		0	0	1	0	0
WHAMMP3	339005	broad.mit.edu	37	15	23191911	23191911	+	RNA	SNP	C	T	T	rs147199465	by1000genomes	TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr15:23191911C>T	uc001yvg.3	-	8		c.1726G>A			WHAMMP3_uc010ayc.3_Non-coding_Transcript|WHAMMP3_uc010ayd.3_Non-coding_Transcript					Homo sapiens WAS protein homolog associated with actin, golgi membranes and microtubules pseudogene 3 (WHAMMP3), non-coding RNA.																		TGATTTTCTTCGCACTGATCC	0.408000														64			3		0	0	1	0	0
CNTN3	5067	broad.mit.edu	37	3	74570232	74570232	+	Missense_Mutation	SNP	A	G	G			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr3:74570232A>G	uc003dpm.1	-	0	112	c.32T>C	c.(31-33)cTt>cCt	p.L11P		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	Homo sapiens contactin 3 (plasmacytoma associated) (CNTN3), mRNA.	11					cell adhesion	anchored to membrane|plasma membrane	protein binding			NS(2)|breast(4)|central_nervous_system(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(14)|lung(39)|ovary(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(1)	83		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)		AATGAATGAAAGCAGGATCAA	0.343000														317			5		0	0	1	0	0
CDC45	8318	broad.mit.edu	37	22	19496202	19496202	+	Missense_Mutation	SNP	A	G	G			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr22:19496202A>G	uc011aha.2	+	13	1379	c.1301A>G	c.(1300-1302)gAc>gGc	p.D434G	CDC45_uc011agz.1_Missense_Mutation_p.D397G|CDC45_uc002zpr.3_Missense_Mutation_p.D402G|CDC45_uc002zpt.3_Missense_Mutation_p.D356G	NM_001178010	NP_001171481	O75419	CDC45_HUMAN	Homo sapiens cell division cycle 45 homolog (S. cerevisiae) (CDC45), transcript variant 1, mRNA.	402					DNA replication checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|regulation of transcription involved in G1/S phase of mitotic cell cycle	centrosome|nucleoplasm	protein binding			breast(1)|central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(2)|lung(7)|prostate(2)|skin(1)	19						CAGGCTCTGGACAGCCTCTCC	0.602000														142			4		0	0	1	0	0
ACAN	176	broad.mit.edu	37	15	89383275	89383275	+	Missense_Mutation	SNP	C	T	T			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr15:89383275C>T	uc010upo.1	+	3	861	c.487C>T	c.(487-489)Cgc>Tgc	p.R163C	ACAN_uc002bmx.3_Missense_Mutation_p.R163C|ACAN_uc010upp.1_Missense_Mutation_p.R163C|ACAN_uc002bna.2_Non-coding_Transcript	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	Homo sapiens aggrecan (ACAN), transcript variant 2, mRNA.	163					cell adhesion		hyaluronic acid binding|sugar binding			NS(1)|central_nervous_system(4)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(15)|liver(2)|lung(40)|ovary(2)|prostate(5)|skin(5)|stomach(8)|upper_aerodigestive_tract(1)|urinary_tract(2)	93	Lung NSC(78;0.0392)|all_lung(78;0.077)		BRCA - Breast invasive adenocarcinoma(143;0.146)			CATCTCTACACGCTACACCCT	0.597000														248			7		0	0	1	0	0
MUC16	94025	broad.mit.edu	37	19	9058813	9058813	+	Missense_Mutation	SNP	C	G	G			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr19:9058813C>G	uc002mkp.3	-	2	28837	c.28633G>C	c.(28633-28635)Gtg>Ctg	p.V9545L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	Homo sapiens mucin 16, cell surface associated (MUC16), mRNA.	9547	Ser-rich.|Thr-rich.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						GGAGATATCACTTTTGTTGGC	0.453000														156			11		0	0	1	0	0
IRF2	3660	broad.mit.edu	37	4	185339717	185339717	+	Missense_Mutation	SNP	C	A	A			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr4:185339717C>A	uc003iwf.4	-	3	533	c.333G>T	c.(331-333)atG>atT	p.M111I		NM_002199	NP_002190	P14316	IRF2_HUMAN	Homo sapiens interferon regulatory factor 2 (IRF2), mRNA.	111					blood coagulation|cell proliferation|interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	focal adhesion|nucleoplasm	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			cervix(1)|endometrium(2)|kidney(1)|large_intestine(4)|liver(2)|lung(3)|ovary(2)|prostate(1)|skin(3)|stomach(1)|urinary_tract(2)	22		all_lung(41;7.86e-14)|Lung NSC(41;1.87e-13)|Colorectal(36;0.00146)|Hepatocellular(41;0.00826)|Renal(120;0.00992)|Prostate(90;0.0115)|all_neural(102;0.0573)|all_hematologic(60;0.0592)		all cancers(43;3.94e-27)|Epithelial(43;5.3e-24)|OV - Ovarian serous cystadenocarcinoma(60;1.06e-10)|Colorectal(24;7.98e-07)|STAD - Stomach adenocarcinoma(60;3.95e-05)|GBM - Glioblastoma multiforme(59;8.3e-05)|COAD - Colon adenocarcinoma(29;0.000106)|BRCA - Breast invasive adenocarcinoma(30;0.000311)|LUSC - Lung squamous cell carcinoma(40;0.0128)|READ - Rectum adenocarcinoma(43;0.0419)		ATAGGGGCAGCATTCGGTAGA	0.403000														172			5		0.00116845	0.00116845	1	1	0
ADAMTS12	81792	broad.mit.edu	37	5	33881393	33881393	+	Missense_Mutation	SNP	G	A	A			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr5:33881393G>A	uc003jia.1	-	1	483	c.320C>T	c.(319-321)aCg>aTg	p.T107M	ADAMTS12_uc010iuq.1_Missense_Mutation_p.T107M|ADAMTS12_uc003jib.1_Missense_Mutation_p.T107M	NM_030955	NP_112217	P58397	ATS12_HUMAN	Homo sapiens ADAM metallopeptidase with thrombospondin type 1 motif, 12 (ADAMTS12), mRNA.	107					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			NS(1)|breast(7)|central_nervous_system(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(11)|large_intestine(31)|liver(1)|lung(135)|ovary(4)|prostate(1)|skin(6)|stomach(1)|upper_aerodigestive_tract(4)|urinary_tract(5)	216						TTGATTGACCGTCAAGTTAAA	0.478000										HNSCC(64;0.19)				129			5		0	0	1	0	0
ZNF391	346157	broad.mit.edu	37	6	27368216	27368216	+	Nonsense_Mutation	SNP	C	T	T			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr6:27368216C>T	uc003njf.1	+	2	585	c.67C>T	c.(67-69)Caa>Taa	p.Q23*	ZNF391_uc021ypw.1_Nonsense_Mutation_p.Q23*	NM_001076781	NP_001070249	Q9UJN7	ZN391_HUMAN	Homo sapiens zinc finger protein 391 (ZNF391), mRNA.	23					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			endometrium(2)|large_intestine(6)|lung(7)|pancreas(2)|skin(3)|upper_aerodigestive_tract(1)	21						AAACGAAGGCCAATTATCAAG	0.413000														60			3		0	0	1	0	0
CEP152	22995	broad.mit.edu	37	15	49081131	49081131	+	Missense_Mutation	SNP	T	C	C			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr15:49081131T>C	uc001zwz.3	-	8	1233	c.1040A>G	c.(1039-1041)cAt>cGt	p.H347R	CEP152_uc001zwy.3_Missense_Mutation_p.H347R|CEP152_uc001zxa.2_Missense_Mutation_p.H254R	NM_001194998	NP_001181927	O94986	CE152_HUMAN	Homo sapiens centrosomal protein 152kDa (CEP152), transcript variant 1, mRNA.	347					G2/M transition of mitotic cell cycle|centrosome duplication	centrosome|cytosol	protein kinase binding			breast(3)|cervix(3)|endometrium(3)|kidney(3)|large_intestine(16)|lung(30)|ovary(1)|prostate(2)|skin(2)	63		all_lung(180;0.0428)		all cancers(107;1.08e-07)|GBM - Glioblastoma multiforme(94;2.32e-06)		TTCAGAATGATGAAGGTCCAC	0.408000														217			9		0	0	1	0	0
CDC40	51362	broad.mit.edu	37	6	110528751	110528751	+	Missense_Mutation	SNP	C	A	A			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr6:110528751C>A	uc003pua.3	+	3	510	c.449C>A	c.(448-450)gCt>gAt	p.A150D		NM_015891	NP_056975	O60508	PRP17_HUMAN	Homo sapiens cell division cycle 40 homolog (S. cerevisiae) (CDC40), mRNA.	150					mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm		p.A150D(2)		breast(1)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(4)|lung(7)|prostate(1)|skin(1)	18		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		CAAGTGTCTGCTAAATATATT	0.269000														140			6		2.7689e-08	3.15081e-08	1	1	0
SHISA6	388336	broad.mit.edu	37	17	11461116	11461116	+	Missense_Mutation	SNP	C	T	T			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr17:11461116C>T	uc002gnc.2	+	5	1151	c.1151C>T	c.(1150-1152)cCc>cTc	p.P384L	SHISA6_uc010com.3_Missense_Mutation_p.P365L|SHISA6_uc002gna.4_Missense_Mutation_p.P333L|SHISA6_uc010con.3_Missense_Mutation_p.P63L	NM_207386	NP_997269	Q6ZSJ9	SHSA6_HUMAN	Homo sapiens shisa homolog 6 (Xenopus laevis) (SHISA6), transcript variant 1, mRNA.	333						integral to membrane				breast(1)|endometrium(4)	5						CGGCACCTGCCCGACCTGGCT	0.647000														88			3		0	0	1	0	0
OTOG	340990	broad.mit.edu	37	11	17618539	17618539	+	Missense_Mutation	SNP	A	C	C			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr11:17618539A>C	uc001mnh.1	+	6	1032	c.748A>C	c.(748-750)Acc>Ccc	p.T250P				Q6ZRI0	OTOG_HUMAN	RecName: Full=Otogelin; Flags: Precursor;	1235	VWFD 1.				L-arabinose metabolic process	apical plasma membrane|extracellular space	alpha-N-arabinofuranosidase activity			breast(3)|central_nervous_system(1)|lung(1)|skin(1)	6						TGACTGGCGAACCCCCCGCCT	0.612000														42			9		0	0	1	0	0
RPTOR	57521	broad.mit.edu	37	17	78866565	78866565	+	Missense_Mutation	SNP	G	T	T			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr17:78866565G>T	uc002jyt.1	+	18	2943	c.2138G>T	c.(2137-2139)tGc>tTc	p.C713F	RPTOR_uc010wug.1_Missense_Mutation_p.C555F	NM_020761	NP_065812	Q8N122	RPTOR_HUMAN	Homo sapiens regulatory associated protein of MTOR, complex 1 (RPTOR), transcript variant 1, mRNA.	713					TOR signaling cascade|cell cycle arrest|cell growth|cellular response to amino acid stimulus|cellular response to nutrient levels|insulin receptor signaling pathway|positive regulation of TOR signaling cascade|positive regulation of protein serine/threonine kinase activity	TORC1 complex|cytosol|lysosome	protein complex binding			breast(1)|endometrium(4)|kidney(1)|large_intestine(12)|lung(17)|ovary(3)|prostate(1)|skin(1)|stomach(1)|urinary_tract(3)	44						GACAGCCCGTGCACCCCCAGA	0.542000														25			37		6.33695e-27	7.74516e-27	1	1	0
MGC70870	403340	broad.mit.edu	37	GL000205.1	117684	117684	+	RNA	SNP	C	T	T			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chrGL000205.1:117684C>T	uc002kgk.4	+	0		c.1062C>T								Homo sapiens C-terminal binding protein 2 pseudogene (MGC70870), non-coding RNA.																		AGCAGATTGGCGAGGTGGCCT	0.602000														30			6		0	0	1	0	0
KCNC4	3749	broad.mit.edu	37	1	110768807	110768808	+	Frame_Shift_Ins	INS	-	T	T			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr1:110768807_110768808insT	uc009wfr.3	+	2	2612_2613	c.1826_1827insT	c.(1825-1827)gctfs	p.A609fs	KCNC4_uc001dzh.3_Intron|KCNC4_uc001dzi.3_Intron|KCNC4_uc001dzg.3_Intron	NM_001039574	NP_001034663	Q03721	KCNC4_HUMAN	Homo sapiens potassium voltage-gated channel, Shaw-related subfamily, member 4 (KCNC4), transcript variant 3, mRNA.	496					synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(1)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(3)|liver(2)|lung(11)|ovary(1)|skin(2)	32		all_cancers(81;9.88e-06)|all_epithelial(167;3.23e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0238)|all cancers(265;0.0693)|Epithelial(280;0.0748)|Colorectal(144;0.112)|LUSC - Lung squamous cell carcinoma(189;0.135)		AAAGGTATGGCTTCCCAAGCTG	0.639													---	107	---	---	7	---					
HRNR	388697	broad.mit.edu	37	1	152186038	152186038	+	Frame_Shift_Del	DEL	A	-	-			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr1:152186038delA	uc001ezt.1	-	2	8143	c.8067delT	c.(8065-8067)ggtfs	p.G2689fs		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	Homo sapiens hornerin (HRNR), mRNA.	2689					keratinization		calcium ion binding|protein binding	p.L2688S(1)|p.L2688F(1)		autonomic_ganglia(1)|breast(6)|central_nervous_system(2)|cervix(2)|endometrium(22)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(19)|liver(1)|lung(84)|ovary(5)|prostate(6)|skin(12)|stomach(9)|upper_aerodigestive_tract(5)|urinary_tract(6)	192	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CAGAAGAGTGACCCAAGCGAG	0.577													---	152	---	---	10	---					
HRNR	388697	broad.mit.edu	37	1	152186041	152186042	+	Frame_Shift_Ins	INS	-	GG	GG	rs12751022	byFrequency	TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr1:152186041_152186042insGG	uc001ezt.1	-	2	8139_8140	c.8063_8064insCC	c.(8062-8064)ttgfs	p.L2688fs		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	Homo sapiens hornerin (HRNR), mRNA.	2688				L -> S (in Ref. 1; BAC57496).	keratinization		calcium ion binding|protein binding	p.L2688S(2)|p.L2688F(2)		autonomic_ganglia(1)|breast(6)|central_nervous_system(2)|cervix(2)|endometrium(22)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(19)|liver(1)|lung(84)|ovary(5)|prostate(6)|skin(12)|stomach(9)|upper_aerodigestive_tract(5)|urinary_tract(6)	192	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			AAGAGTGACCCAAGCGAGACTC	0.584													---	153	---	---	10	---					
HRNR	388697	broad.mit.edu	37	1	152186047	152186047	+	Frame_Shift_Del	DEL	A	-	-			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr1:152186047delA	uc001ezt.1	-	2	8134	c.8058delT	c.(8056-8058)tctfs	p.S2686fs		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	Homo sapiens hornerin (HRNR), mRNA.	2686					keratinization		calcium ion binding|protein binding			autonomic_ganglia(1)|breast(6)|central_nervous_system(2)|cervix(2)|endometrium(22)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(19)|liver(1)|lung(84)|ovary(5)|prostate(6)|skin(12)|stomach(9)|upper_aerodigestive_tract(5)|urinary_tract(6)	192	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GACCCAAGCGAGACTCATATG	0.587													---	150	---	---	10	---					
URGCP	55665	broad.mit.edu	37	7	43917145	43917146	+	Frame_Shift_Ins	INS	-	C	C			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr7:43917145_43917146insC	uc003tiw.3	-	5	1973_1974	c.1916_1917insG	c.(1915-1917)ggcfs	p.G639fs	URGCP_uc022acg.1_Intron|URGCP_uc003tiu.3_Frame_Shift_Ins_p.G596fs|URGCP_uc003tiv.3_Frame_Shift_Ins_p.G564fs|URGCP_uc003tix.3_Frame_Shift_Ins_p.G630fs|URGCP_uc003tiy.3_Frame_Shift_Ins_p.G596fs|URGCP_uc003tiz.3_Frame_Shift_Ins_p.G596fs|URGCP_uc011kbj.2_Frame_Shift_Ins_p.G596fs	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	Homo sapiens upregulator of cell proliferation (URGCP), nuclear gene encoding mitochondrial protein, transcript variant 3, mRNA.	639					cell cycle	centrosome|nucleus	GTP binding			breast(3)|endometrium(4)|kidney(2)|large_intestine(3)|liver(1)|lung(13)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	34						AACGCCTCTGGCCTGCCGGCAG	0.629													---	94	---	---	8	---					
CLCN1	1180	broad.mit.edu	37	7	143047474	143047475	+	Frame_Shift_Ins	INS	-	G	G			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr7:143047474_143047475insG	uc003wcr.1	+	20	2500_2501	c.2413_2414insG	c.(2413-2415)tggfs	p.W805fs	CLCN1_uc011ktc.1_Frame_Shift_Ins_p.W417fs	NM_000083	NP_000074	P35523	CLCN1_HUMAN	Homo sapiens chloride channel 1, skeletal muscle (CLCN1), mRNA.	805					muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			breast(4)|central_nervous_system(1)|endometrium(1)|large_intestine(11)|lung(26)|ovary(3)|prostate(2)|skin(7)|stomach(1)|upper_aerodigestive_tract(2)	58	Melanoma(164;0.205)					GATTGAGGCCTGGGAGCAGGAG	0.554													---	226	---	---	7	---					
NOTCH1	4851	broad.mit.edu	37	9	139417353	139417354	+	Frame_Shift_Ins	INS	-	GA	GA			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr9:139417353_139417354insGA	uc004chz.3	-	3	690_691	c.690_691insTC	c.(688-693)gggggcfs	p.G230fs		NM_017617	NP_060087	P46531	NOTC1_HUMAN	Homo sapiens notch 1 (NOTCH1), mRNA.	230	EGF-like 6.				Notch receptor processing|aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent	Golgi lumen|cytosol|endoplasmic reticulum lumen|extracellular region|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			breast(16)|central_nervous_system(17)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1183)|kidney(4)|large_intestine(1)|lung(57)|oesophagus(2)|ovary(3)|pancreas(1)|prostate(3)|skin(21)|upper_aerodigestive_tract(39)|urinary_tract(3)	1359	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		CGGCAGGTGCCCCCGTTCTGGC	0.748			"""T, Mis, O"""	TRB@	T-ALL					HNSCC(8;0.001)			---	3	---	---	3	---					
NOTCH1	4851	broad.mit.edu	37	9	139417355	139417356	+	Frame_Shift_Ins	INS	-	T	T			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr9:139417355_139417356insT	uc004chz.3	-	3	688_689	c.688_689insA	c.(688-690)gggfs	p.G230fs		NM_017617	NP_060087	P46531	NOTC1_HUMAN	Homo sapiens notch 1 (NOTCH1), mRNA.	230	EGF-like 6.				Notch receptor processing|aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent	Golgi lumen|cytosol|endoplasmic reticulum lumen|extracellular region|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			breast(16)|central_nervous_system(17)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1183)|kidney(4)|large_intestine(1)|lung(57)|oesophagus(2)|ovary(3)|pancreas(1)|prostate(3)|skin(21)|upper_aerodigestive_tract(39)|urinary_tract(3)	1359	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		GCAGGTGCCCCCGTTCTGGCAG	0.748			"""T, Mis, O"""	TRB@	T-ALL					HNSCC(8;0.001)			---	3	---	---	3	---					
PLEKHG3	26030	broad.mit.edu	37	14	65209023	65209024	+	Frame_Shift_Ins	INS	-	C	C			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr14:65209023_65209024insC	uc001xhp.2	+	15	3190_3191	c.3151_3152insC	c.(3151-3153)gccfs	p.A1051fs	PLEKHG3_uc001xhn.1_Frame_Shift_Ins_p.A874fs|PLEKHG3_uc001xho.1_Frame_Shift_Ins_p.A930fs|PLEKHG3_uc010aqh.1_Frame_Shift_Ins_p.A472fs|PLEKHG3_uc001xhq.1_Frame_Shift_Ins_p.A435fs	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	Homo sapiens pleckstrin homology domain containing, family G (with RhoGef domain) member 3 (PLEKHG3), mRNA.	930					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			endometrium(5)|kidney(2)|large_intestine(1)|lung(14)|prostate(2)|skin(3)|urinary_tract(2)	29				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		CTACCAGCTGGCCCGCCAGTAC	0.644													---	126	---	---	12	---					
abParts	0	broad.mit.edu	37	14	106452797	106452798	+	RNA	INS	-	C	C			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr14:106452797_106452798insC	uc021ser.1	-	2607		c.45162_45163insG								Parts of antibodies, mostly variable regions.																		AGTTTGTGCCACCACTGTTAGG	0.554													---	1069	---	---	7	---					
MYH14	79784	broad.mit.edu	37	19	50805044	50805045	+	Frame_Shift_Ins	INS	-	C	C			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr19:50805044_50805045insC	uc010enu.1	+	39	5643_5644	c.5596_5597insC	c.(5596-5598)gccfs	p.A1866fs	MYH14_uc002prq.1_Frame_Shift_Ins_p.A1833fs|MYH14_uc002prr.1_Frame_Shift_Ins_p.A1825fs|MYH14_uc010ycb.2_Frame_Shift_Ins_p.A176fs|MYH14_uc002prs.1_Frame_Shift_Ins_p.A176fs	NM_001145809	NP_001139281	Q7Z406	MYH14_HUMAN	Homo sapiens myosin, heavy chain 14, non-muscle (MYH14), transcript variant 3, mRNA.	1825					axon guidance|regulation of cell shape	myosin complex	ATP binding|actin binding|calmodulin binding|motor activity			central_nervous_system(1)|cervix(2)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(10)|lung(10)|ovary(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	46		all_neural(266;0.0571)|Ovarian(192;0.0728)		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)		GGATGCTGGGGCCCGTGCCCGC	0.639													---	87	---	---	7	---					
CABIN1	23523	broad.mit.edu	37	22	24573681	24573681	+	Frame_Shift_Del	DEL	T	-	-			TCGA-KN-8425-01A-11D-2310-10	TCGA-KN-8425-11A-01D-2310-10								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	81bb13fc-f082-4c0b-8066-1729f11ef617	d0260f96-f7bd-41b1-b929-9451954cb3b4	g.chr22:24573681delT	uc002zzi.1	+	35	6542	c.6415delT	c.(6415-6417)tccfs	p.S2139fs	CABIN1_uc021wnc.1_Frame_Shift_Del_p.S2089fs|CABIN1_uc002zzj.1_Frame_Shift_Del_p.S2060fs|CABIN1_uc002zzl.2_Frame_Shift_Del_p.S2139fs|CABIN1_uc010gul.1_Frame_Shift_Del_p.S77fs	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	Homo sapiens calcineurin binding protein 1 (CABIN1), transcript variant 2, mRNA.	2139	Required for interaction with calcineurin (By similarity).				cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			breast(2)|central_nervous_system(2)|endometrium(6)|kidney(6)|large_intestine(13)|liver(1)|lung(18)|ovary(5)|pancreas(3)|prostate(1)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	65						GGTCATCCCCTCCGCCGCCAC	0.662													---	495	---	---	8	---					
