Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_alt_allele	validation_method	validation_status	validation_tumor_sample	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
TACC2	10579	broad.mit.edu	37	10	123843740	123843740	+	Missense_Mutation	SNP	C	C	A			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr10:123843740C>A	ENST00000369005.1	+	4	2065	c.1725C>A	c.(1723-1725)agC>agA	p.S575R	TACC2_ENST00000515603.1_Missense_Mutation_p.S575R|TACC2_ENST00000515273.1_Missense_Mutation_p.S575R|TACC2_ENST00000513429.1_Intron|TACC2_ENST00000334433.3_Missense_Mutation_p.S575R|TACC2_ENST00000453444.2_Missense_Mutation_p.S575R|TACC2_ENST00000358010.1_Intron	NM_206862.2	NP_996744.2	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing protein 2	575						microtubule organizing center|nucleus	nuclear hormone receptor binding			NS(1)|breast(5)|central_nervous_system(1)|cervix(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(15)|lung(27)|ovary(6)|prostate(3)|skin(8)|stomach(2)|upper_aerodigestive_tract(2)|urinary_tract(3)	83		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				CTGGTGACAGCCCTGGAGGAA	0.602000													20	59					1.64113e-05	1.94505e-05	1	1	0
POTEM	641455	broad.mit.edu	37	14	20010235	20010235	+	Missense_Mutation	SNP	A	A	G			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr14:20010235A>G	ENST00000551509.1	-	5	974	c.923T>C	c.(922-924)gTt>gCt	p.V308A	RP11-244H18.1_ENST00000547584.1_lincRNA	NM_001145442.1	NP_001138914.1	A6NI47	POTEM_HUMAN	POTE ankyrin domain family, member M	308										endometrium(4)|kidney(1)|lung(4)	9						AAGTATGAGAACAGTTCTAAA	0.368000													4	102					0	0	1	0	0
ACTL8	81569	broad.mit.edu	37	1	18152586	18152586	+	Missense_Mutation	SNP	C	C	T			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr1:18152586C>T	ENST00000375406.1	+	3	889	c.673C>T	c.(673-675)Cgt>Tgt	p.R225C		NM_030812.2	NP_110439.2	Q9H568	ACTL8_HUMAN	actin-like 8	225						cytoplasm|cytoskeleton				NS(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(4)|liver(1)|lung(10)|ovary(4)|prostate(1)|skin(1)|urinary_tract(1)	28		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00186)|all_lung(284;0.0054)|Lung NSC(340;0.00566)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00583)|BRCA - Breast invasive adenocarcinoma(304;6.43e-06)|Kidney(64;0.000258)|KIRC - Kidney renal clear cell carcinoma(64;0.00348)|STAD - Stomach adenocarcinoma(196;0.00652)|READ - Rectum adenocarcinoma(331;0.0698)|Lung(427;0.201)		CCTGGACTTTCGTGAGAGGCA	0.597000											OREG0013157	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	43					0	0	1	0	0
HS1BP3	64342	broad.mit.edu	37	2	20818912	20818912	+	Silent	SNP	C	C	T			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr2:20818912C>T	ENST00000304031.3	-	7	1039	c.1014G>A	c.(1012-1014)ccG>ccA	p.P338P		NM_022460.3	NP_071905.3	Q53T59	H1BP3_HUMAN	HCLS1 binding protein 3	338	Pro-rich.				cell communication		phosphatidylinositol binding			endometrium(4)|large_intestine(1)|lung(7)|ovary(1)|skin(2)	15	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGGGTATCACCGGCTTAGCTG	0.597000													6	173					0	0	1	0	0
KL	9365	broad.mit.edu	37	13	33638043	33638043	+	Missense_Mutation	SNP	G	G	A			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr13:33638043G>A	ENST00000380099.3	+	5	2767	c.2759G>A	c.(2758-2760)cGc>cAc	p.R920H	KL_ENST00000487852.1_3'UTR	NM_004795.3	NP_004786.2	Q9UEF7	KLOT_HUMAN	klotho	920	Glycosyl hydrolase-1 2.				aging|carbohydrate metabolic process|insulin receptor signaling pathway|positive regulation of bone mineralization	extracellular space|integral to membrane|integral to plasma membrane|membrane fraction|soluble fraction	beta-glucosidase activity|beta-glucuronidase activity|cation binding|fibroblast growth factor binding|hormone activity|signal transducer activity|vitamin D binding	p.R920H(1)		breast(2)|endometrium(5)|kidney(3)|large_intestine(10)|lung(14)|ovary(2)|skin(5)	41	all_epithelial(80;0.133)	Ovarian(182;1.78e-06)|Breast(139;4.08e-05)|Hepatocellular(188;0.00886)|Lung SC(185;0.0262)		GBM - Glioblastoma multiforme(144;7.13e-230)|all cancers(112;1.33e-165)|OV - Ovarian serous cystadenocarcinoma(117;1.09e-113)|Epithelial(112;3.79e-112)|Lung(94;8.52e-27)|LUSC - Lung squamous cell carcinoma(192;1.4e-13)|Kidney(163;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(186;5.63e-08)|BRCA - Breast invasive adenocarcinoma(63;1.41e-05)		TTTAACGACCGCACAGCTCCG	0.418000													5	193					0	0	1	0	0
DNAAF2	55172	broad.mit.edu	37	14	50092335	50092335	+	Silent	SNP	A	A	G			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr14:50092335A>G	ENST00000298292.8	-	3	2519	c.2439T>C	c.(2437-2439)agT>agC	p.S813S	DNAAF2_ENST00000406043.3_Silent_p.S765S	NM_018139.2	NP_060609.2	Q9NVR5	KTU_HUMAN	dynein, axonemal, assembly factor 2	813					axonemal dynein complex assembly|ciliary cell motility|flagellar cell motility	cytoplasm				kidney(1)|lung(4)	5						TGACCTGCACACTACCATCCT	0.333000													5	103					0	0	1	0	0
MAML3	55534	broad.mit.edu	37	4	140811108	140811108	+	Silent	SNP	C	C	T			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr4:140811108C>T	ENST00000509479.2	-	2	2338	c.1482G>A	c.(1480-1482)caG>caA	p.Q494Q	MAML3_ENST00000398940.1_Silent_p.Q33Q|MAML3_ENST00000327122.5_Silent_p.Q338Q	NM_018717.4	NP_061187.2	Q96JK9	MAML3_HUMAN	mastermind-like 3 (Drosophila)	494	Gln-rich.				Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity			breast(1)|endometrium(7)|kidney(2)|large_intestine(1)|lung(9)|ovary(1)|prostate(2)|urinary_tract(2)	25	all_hematologic(180;0.162)					gctgctgctgctgctgctgct	0.537000													4	41					0	0	1	0	0
TTLL1	25809	broad.mit.edu	37	22	43465690	43465690	+	Missense_Mutation	SNP	C	C	T			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr22:43465690C>T	ENST00000331018.7	-	4	514	c.274G>A	c.(274-276)Ggg>Agg	p.G92R	TTLL1_ENST00000266254.7_Missense_Mutation_p.G92R			O95922	TTLL1_HUMAN	tubulin tyrosine ligase-like family, member 1	92	TTL.				protein polyglutamylation	cytoplasm|microtubule	ATP binding|tubulin-glutamic acid ligase activity|tubulin-tyrosine ligase activity			breast(3)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(7)|ovary(1)|skin(2)|stomach(1)	23		Ovarian(80;0.0694)		BRCA - Breast invasive adenocarcinoma(115;0.00461)		AGAGGACTCCCTTCTTTCTCC	0.428000													40	196					0	0	1	0	0
LUM	4060	broad.mit.edu	37	12	91502054	91502054	+	Missense_Mutation	SNP	G	G	A			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr12:91502054G>A	ENST00000266718.4	-	2	1157	c.703C>T	c.(703-705)Cgt>Tgt	p.R235C	LUM_ENST00000548071.1_5'UTR	NM_002345.3	NP_002336.1	P51884	LUM_HUMAN	lumican	235					collagen fibril organization|visual perception	extracellular space|fibrillar collagen	collagen binding|extracellular matrix structural constituent	p.R235C(1)		central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(7)|lung(9)|skin(1)|upper_aerodigestive_tract(1)	24						TGAGATAAACGCAGATACTGC	0.403000													49	87					0	0	1	0	0
PSG2	5670	broad.mit.edu	37	19	43585116	43585116	+	Missense_Mutation	SNP	T	T	C			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr19:43585116T>C	ENST00000406487.1	-	2	445	c.347A>G	c.(346-348)gAc>gGc	p.D116G		NM_031246.3	NP_112536.2	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	116	Ig-like V-type.				cell migration|female pregnancy	extracellular region				central_nervous_system(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(24)|ovary(1)|pancreas(2)|prostate(6)|stomach(2)|urinary_tract(2)	49		Prostate(69;0.00682)				GGATCCTGCGTCCTCCCGGGT	0.453000													123	182					0	0	1	0	0
STX8	9482	broad.mit.edu	37	17	9153924	9153924	+	Missense_Mutation	SNP	C	C	T			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr17:9153924C>T	ENST00000306357.3	-	8	1109	c.682G>A	c.(682-684)Gtg>Atg	p.V228M	STX8_ENST00000574431.1_Missense_Mutation_p.V117M	NM_004853.2	NP_004844.1	Q9UNK0	STX8_HUMAN	syntaxin 8	228					transport	endoplasmic reticulum|integral to plasma membrane				central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(3)|skin(1)|urinary_tract(1)	12						GCAACAACCACGATAGCCACA	0.463000													4	12					0	0	1	0	0
KRTAP4-11	653240	broad.mit.edu	37	17	39274291	39274291	+	Missense_Mutation	SNP	T	T	C	rs149439944	by1000genomes	TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr17:39274291T>C	ENST00000391413.2	-	1	315	c.277A>G	c.(277-279)Atg>Gtg	p.M93V		NM_033059.3	NP_149048.2	Q9BYQ6	KR411_HUMAN	keratin associated protein 4-11	93	27 X 5 AA repeats of C-C-[GIKRQVHEL]- [SPTR]-[STVQRMC].					keratin filament		p.M93V(4)		endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|lung(8)|prostate(5)|skin(1)	33		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			TGGCAGCACATAGACTGGCAG	0.662000													4	67					0	0	1	0	0
SMU1	55234	broad.mit.edu	37	9	33068870	33068870	+	Silent	SNP	G	G	A	rs113018466	byFrequency	TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr9:33068870G>A	ENST00000397149.3	-	4	503	c.453C>T	c.(451-453)ggC>ggT	p.G151G	SMU1_ENST00000536631.1_5'UTR	NM_018225.2	NP_060695.2	Q2TAY7	SMU1_HUMAN	smu-1 suppressor of mec-8 and unc-52 homolog (C. elegans)	151						cytoplasm|nucleus				endometrium(2)|lung(4)|ovary(2)|prostate(1)	9			LUSC - Lung squamous cell carcinoma(29;0.0227)	GBM - Glioblastoma multiforme(74;0.11)		CACTGACTTCGCCAGCTAAGG	0.507000													3	39					0	0	1	0	0
SMG1	23049	broad.mit.edu	37	16	18937330	18937330	+	Missense_Mutation	SNP	T	T	C			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr16:18937330T>C	ENST00000446231.2	-	1	446	c.34A>G	c.(34-36)Agc>Ggc	p.S12G	SMG1_ENST00000567737.1_5'UTR|SMG1_ENST00000389467.3_Missense_Mutation_p.S12G			Q96Q15	SMG1_HUMAN	SMG1 phosphatidylinositol 3-kinase-related kinase	12	Interaction with SMG8 and SMG9.				DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			NS(2)|breast(8)|cervix(2)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(16)|lung(37)|ovary(1)|skin(1)|stomach(4)|urinary_tract(1)	92						ccgccgccgctgcTCAGCCGA	0.736000													3	17					0	0	1	0	0
PROS1	5627	broad.mit.edu	37	3	93646235	93646235	+	Translation_Start_Site	SNP	C	C	A			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr3:93646235C>A	ENST00000407433.1	-	0	260				PROS1_ENST00000394236.3_Missense_Mutation_p.Q31H			P07225	PROS_HUMAN	protein S (alpha)						leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			endometrium(3)|kidney(5)|large_intestine(8)|lung(26)|ovary(1)|skin(2)|urinary_tract(1)	46					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	CTTGTGAAGCCTGTTGCTTTG	0.318000													4	58					0.00024832	0.000274008	1	1	0
IGSF22	283284	broad.mit.edu	37	11	18732256	18732256	+	Nonsense_Mutation	SNP	G	G	A			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr11:18732256G>A	ENST00000513874.1	-	16	2657	c.2518C>T	c.(2518-2520)Cga>Tga	p.R840*	RP11-1081L13.4_ENST00000527285.1_RNA	NM_173588.3	NP_775859.3	Q8N9C0	IGS22_HUMAN	immunoglobulin superfamily, member 22	838	Fibronectin type-III 2.									NS(2)|autonomic_ganglia(1)|breast(3)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(20)|ovary(4)|prostate(4)|skin(3)	56						TTCTTCCTTCGTTCTACAATG	0.567000													29	14					0	0	1	0	0
KRTAP4-9	100132386	broad.mit.edu	37	17	39261693	39261693	+	Missense_Mutation	SNP	A	A	T	rs113059833	by1000genomes	TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr17:39261693A>T	ENST00000391415.1	+	1	110	c.53A>T	c.(52-54)gAc>gTc	p.D18V		NM_001146041.1	NP_001139513.1	Q9BYQ8	KRA49_HUMAN	keratin associated protein 4-9	18						keratin filament		p.D18V(1)		central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(1)|urinary_tract(3)	14						TGCGGCCAAGACCTCTGTCAG	0.627000													5	47					0	0	1	0	0
FAM104B	90736	broad.mit.edu	37	X	55172537	55172537	+	Nonsense_Mutation	SNP	G	G	A	rs1047054	by1000genomes	TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chrX:55172537G>A	ENST00000425133.2	-	3	369	c.331C>T	c.(331-333)Cga>Tga	p.R111*	FAM104B_ENST00000489298.1_Nonsense_Mutation_p.R109*|FAM104B_ENST00000358460.4_Intron|FAM104B_ENST00000477847.2_Nonsense_Mutation_p.R107*|FAM104B_ENST00000332132.4_Intron|FAM104B_ENST00000472571.2_3'UTR	NM_001166700.1|NM_001166701.1|NM_001166704.1	NP_001160172.1|NP_001160173.1|NP_001160176.1	Q5XKR9	F104B_HUMAN	family with sequence similarity 104, member B	0								p.R111*(5)		endometrium(3)|large_intestine(2)|lung(2)|upper_aerodigestive_tract(1)	8						GCTTGCCCTCGCTGCTGCAGG	0.438000													3	27					0	0	1	0	0
PRDM2	7799	broad.mit.edu	37	1	14106458	14106458	+	Missense_Mutation	SNP	C	C	A			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr1:14106458C>A	ENST00000235372.7	+	8	3024	c.2168C>A	c.(2167-2169)gCa>gAa	p.A723E	PRDM2_ENST00000505823.1_Intron|PRDM2_ENST00000503842.1_Intron|PRDM2_ENST00000376048.5_Intron|PRDM2_ENST00000413440.1_Missense_Mutation_p.A522E|PRDM2_ENST00000343137.4_Missense_Mutation_p.A522E|PRDM2_ENST00000311066.5_Missense_Mutation_p.A723E	NM_012231.4	NP_036363.2	Q13029	PRDM2_HUMAN	PR domain containing 2, with ZNF domain	723						Golgi apparatus|nucleus	DNA binding|histone-lysine N-methyltransferase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(16)|lung(20)|ovary(3)|prostate(3)|skin(1)|urinary_tract(2)	55	Ovarian(185;0.249)	all_lung(284;2.56e-05)|Lung NSC(185;4.94e-05)|Renal(390;0.000147)|Breast(348;0.000162)|Colorectal(325;0.00058)|Ovarian(437;0.00965)|Hepatocellular(190;0.0245)|Myeloproliferative disorder(586;0.0255)	GBM - Glioblastoma multiforme(2;0.00182)	UCEC - Uterine corpus endometrioid carcinoma (279;0.00224)|Colorectal(212;3.23e-08)|BRCA - Breast invasive adenocarcinoma(304;2.16e-05)|COAD - Colon adenocarcinoma(227;2.53e-05)|Kidney(185;0.000762)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.00446)|READ - Rectum adenocarcinoma(331;0.0276)|Lung(427;0.145)		TCTGCTCCTGCATCAATGTTG	0.473000													4	89					0.000602214	0.000642362	1	1	0
DNM1P47	100216544	broad.mit.edu	37	15	102304743	102304743	+	RNA	SNP	G	G	T			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr15:102304743G>T	ENST00000561463.1	+	0	12789																											GACACTCGTGGAGGAGTCGGC	0.612000													4	26					1.12685e-05	1.38689e-05	1	1	0
FAM63A	55793	broad.mit.edu	37	1	150975138	150975138	+	Missense_Mutation	SNP	C	C	A			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr1:150975138C>A	ENST00000361738.6	-	3	319	c.100G>T	c.(100-102)Gtt>Ttt	p.V34F	FAM63A_ENST00000312210.5_Intron|FAM63A_ENST00000493834.2_Intron|FAM63A_ENST00000361936.5_5'UTR|FAM63A_ENST00000470877.1_Intron	NM_001163258.1	NP_001156730.1	Q8N5J2	FA63A_HUMAN	family with sequence similarity 63, member A	0							protein binding			breast(1)|endometrium(3)|large_intestine(4)|lung(11)|ovary(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	23	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			TGTTTACTAACCTCAGGGACT	0.517000													13	21					2.27111e-07	2.90702e-07	1	1	0
RGPD8	727851	broad.mit.edu	37	2	113127775	113127775	+	Missense_Mutation	SNP	G	G	C			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr2:113127775G>C	ENST00000302558.3	-	23	5469	c.5278C>G	c.(5278-5280)Cct>Gct	p.P1760A	RGPD8_ENST00000409750.1_Missense_Mutation_p.P1620A	NM_001164463.1	NP_001157935.1			RANBP2-like and GRIP domain containing 8									p.P1760A(12)		endometrium(4)|kidney(1)|lung(1)|prostate(3)|urinary_tract(1)	10						GAACGGGAAGGATTTTCTTCC	0.308000													3	23					0	0	1	0	0
BAGE2	85319	broad.mit.edu	37	21	11039035	11039035	+	RNA	SNP	A	A	G			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr21:11039035A>G	ENST00000470054.1	-	0	1168									B melanoma antigen family, member 2															Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		CAATTGTAGGAGTCATTTCAG	0.378000													23	604					0	0	1	0	0
TLR4	7099	broad.mit.edu	37	9	120474689	120474689	+	Missense_Mutation	SNP	G	G	T			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr9:120474689G>T	ENST00000355622.6	+	3	384	c.283G>T	c.(283-285)Gat>Tat	p.D95Y	TLR4_ENST00000472304.1_3'UTR|TLR4_ENST00000394487.4_Missense_Mutation_p.D55Y	NM_138554.4|NM_138557.2	NP_612564.1|NP_612567.1	O00206	TLR4_HUMAN	toll-like receptor 4	95					activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			breast(2)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(12)|lung(66)|ovary(4)|pancreas(1)|skin(6)|upper_aerodigestive_tract(5)|urinary_tract(1)	103						GACAATTGAAGATGGGGCATA	0.378000													3	32					0.115264	0.115264	1	1	0
LOC101927209	101927209	broad.mit.edu	37	1	142699953	142699954	+	RNA	INS	-	-	A	rs74315780		TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr1:142699953_142699954insA	ENST00000369381.2	-	0	2077																											tatatatatatatatatatata	0.257													2	4	---	---	---	---					
STAG3L2	442582	broad.mit.edu	37	7	74300803	74300804	+	RNA	INS	-	-	A			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr7:74300803_74300804insA	ENST00000423186.1	-	0	499							P0CL84	ST3L2_HUMAN								nucleus	binding			breast(1)|central_nervous_system(1)|large_intestine(1)|lung(1)|pancreas(1)	5						TCTTCATACTTAAAAAAAAAAA	0.455													2	4	---	---	---	---					
RGS22	26166	broad.mit.edu	37	8	101076229	101076229	+	Frame_Shift_Del	DEL	T	T	-			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr8:101076229delT	ENST00000360863.6	-	8	961	c.767delA	c.(766-768)agfs	p.K256fs	RGS22_ENST00000523287.1_Frame_Shift_Del_p.K75fs|RGS22_ENST00000523437.1_Frame_Shift_Del_p.K244fs	NM_015668.3	NP_056483.3	Q8NE09	RGS22_HUMAN	regulator of G-protein signaling 22	256					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity		RGS22/SYCP1(2)	breast(3)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(9)|lung(33)|ovary(3)|prostate(2)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(1)	68			Epithelial(11;6.71e-08)|all cancers(13;4.19e-06)|OV - Ovarian serous cystadenocarcinoma(57;0.000469)|STAD - Stomach adenocarcinoma(118;0.169)			AGATGGGTCCTTTTTTGTCCT	0.328													8	400	---	---	---	---					
LOC101929735	101929735	broad.mit.edu	37	14	22892202	22892202	+	RNA	DEL	A	A	-			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr14:22892202delA	ENST00000514473.2	-	0	225				AE000661.37_ENST00000545670.1_RNA|AE000661.37_ENST00000535351.1_RNA|AE000661.37_ENST00000541008.1_RNA|AE000661.37_ENST00000537850.1_RNA																							ctaaaaatacaaaaaaaaaaa	0.547													2	4	---	---	---	---					
GSE1	23199	broad.mit.edu	37	16	85682290	85682290	+	Frame_Shift_Del	DEL	C	C	-			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr16:85682290delC	ENST00000253458.7	+	3	535	c.359delC	c.(358-360)acfs	p.T120fs	GSE1_ENST00000393243.1_Frame_Shift_Del_p.T47fs|GSE1_ENST00000405402.2_Frame_Shift_Del_p.T16fs	NM_014615.2	NP_055430.1			Gse1 coiled-coil protein									p.V123fs*2(1)									GTGCCCAGCACCCCCCCCGTG	0.687													8	113	---	---	---	---					
MAP1LC3B	81631	broad.mit.edu	37	16	87426052	87426052	+	Frame_Shift_Del	DEL	T	T	-			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chr16:87426052delT	ENST00000268607.5	+	1	647	c.19delT	c.(19-21)tcfs	p.F7fs	MAP1LC3B_ENST00000565788.1_Frame_Shift_Del_p.F7fs	NM_022818.4	NP_073729.1	Q9GZQ8	MLP3B_HUMAN	microtubule-associated protein 1 light chain 3 beta	7					autophagy	autophagic vacuole membrane|cytoplasmic vesicle|endomembrane system|microtubule	protein binding			endometrium(1)|lung(2)	3				BRCA - Breast invasive adenocarcinoma(80;0.0249)		GGAGAAGACCTTCAAGCAGCG	0.786													2	4	---	---	---	---					
IRAK1	3654	broad.mit.edu	37	X	153285123	153285123	+	Frame_Shift_Del	DEL	C	C	-			TCGA-QR-A7IP-01A-11D-A35D-08	TCGA-QR-A7IP-10A-01D-A35B-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	95d8c07b-c848-461a-b0c1-bac02ceef57d	4beec4a9-1246-497c-9299-f4457425c9da	g.chrX:153285123delC	ENST00000393682.1	-	1	140	c.141delG	c.(139-141)ggfs	p.G47fs	IRAK1_ENST00000369980.3_Intron|IRAK1_ENST00000369974.2_Intron|IRAK1_ENST00000429936.2_Frame_Shift_Del_p.G47fs|IRAK1_ENST00000393687.2_Intron			P51617	IRAK1_HUMAN	interleukin-1 receptor-associated kinase 1	45	Death.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|innate immune response|interleukin-1-mediated signaling pathway|JNK cascade|lipopolysaccharide-mediated signaling pathway|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription, DNA-dependent|protein autophosphorylation|protein oligomerization|regulation of cytokine-mediated signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|transmembrane receptor protein serine/threonine kinase signaling pathway	cytosol|endosome membrane|interleukin-1 receptor complex	ATP binding|NF-kappaB-inducing kinase activity|protein binding|protein heterodimerization activity|protein homodimerization activity|ubiquitin-protein ligase activity			breast(1)|central_nervous_system(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(1)|lung(15)|ovary(2)	25	all_cancers(53;3.7e-16)|all_epithelial(53;3.44e-10)|all_lung(58;2.06e-07)|Lung NSC(58;2.72e-07)|all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					cccgccgccACCCACCGAACT	0.746													2	4	---	---	---	---