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
ANKRD30BL	554226	broad.mit.edu	37	2	132905741	132905741	+	Missense_Mutation	SNP	G	G	A	rs111770980	by1000genomes	TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr2:132905741G>A	ENST00000409867.1	-	6	989	c.740C>T	c.(739-741)aCg>aTg	p.T247M	ANKRD30BL_ENST00000470729.1_5'UTR					ankyrin repeat domain 30B-like											endometrium(1)|kidney(3)	4						GCTTTCAGCCGTGTCAGGTGT	0.438000													3	19					0	0	1	0	0
FAM83A	84985	broad.mit.edu	37	8	124195302	124195302	+	Missense_Mutation	SNP	A	A	G			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr8:124195302A>G	ENST00000518448.1	+	2	2220	c.206A>G	c.(205-207)cAg>cGg	p.Q69R	FAM83A_ENST00000318462.6_Missense_Mutation_p.Q69R|FAM83A_ENST00000546351.1_Missense_Mutation_p.Q69R|FAM83A_ENST00000536633.1_Missense_Mutation_p.Q69R|FAM83A_ENST00000522648.1_Missense_Mutation_p.Q69R|FAM83A_ENST00000276699.6_Missense_Mutation_p.Q69R			Q86UY5	FA83A_HUMAN	family with sequence similarity 83, member A	69										breast(1)|endometrium(2)|kidney(2)|large_intestine(3)|lung(3)|ovary(3)|prostate(2)|skin(1)	17	Lung NSC(37;1.55e-09)|Ovarian(258;0.0205)		STAD - Stomach adenocarcinoma(47;0.00527)			GTGGAGGCCCAGTACATCCAG	0.677000													25	43					0	0	1	0	0
HMGB3	3149	broad.mit.edu	37	X	150156360	150156360	+	Silent	SNP	G	G	A			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chrX:150156360G>A	ENST00000325307.7	+	5	672	c.576G>A	c.(574-576)gaG>gaA	p.E192E	HMGB3_ENST00000448905.2_Silent_p.E192E	NM_005342.2	NP_005333.2	O15347	HMGB3_HUMAN	high mobility group box 3	192	Asp/Glu-rich (acidic).				DNA recombination|multicellular organismal development	chromosome|nucleus	DNA bending activity|double-stranded DNA binding	p.E192E(1)		endometrium(3)|large_intestine(2)|lung(2)|skin(1)	8	Acute lymphoblastic leukemia(192;6.56e-05)					aggaagaagaggaggaggagg	0.443000													4	95					0	0	1	0	0
MAML3	55534	broad.mit.edu	37	4	140811099	140811099	+	Splice_Site	SNP	C	C	T			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr4:140811099C>T	ENST00000398940.1	-	1	107	c.108_splice	c.e1+1	p.Q36_splice	MAML3_ENST00000509479.2_Silent_p.Q497Q|MAML3_ENST00000327122.5_Silent_p.Q341Q			Q96JK9	MAML3_HUMAN	mastermind-like 3 (Drosophila)	497					Notch signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nuclear speck	transcription coactivator activity	p.Q497Q(2)		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	0.542000													5	60					0	0	1	0	0
PRSS3P2	0	broad.mit.edu	37	7	142481789	142481789	+	RNA	SNP	T	T	C	rs140267598	by1000genomes	TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr7:142481789T>C	ENST00000603901.1	+	0	468					NR_001296.3																						ACTACCCAGATGAGCTGCAGT	0.488000													4	191					0	0	1	0	0
USP31	57478	broad.mit.edu	37	16	23117810	23117810	+	Splice_Site	SNP	T	T	A	rs137886921	by1000genomes	TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr16:23117810T>A	ENST00000219689.7	-	3	771		c.e3-2			NM_020718.3	NP_065769.3	Q70CQ4	UBP31_HUMAN	ubiquitin specific peptidase 31						ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			breast(4)|central_nervous_system(2)|cervix(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(13)|lung(17)|ovary(4)|pancreas(1)|prostate(1)|skin(2)|stomach(1)|urinary_tract(2)	57				GBM - Glioblastoma multiforme(48;0.0187)		TGATGGTGGCTAAAAAAAAAA	0.388000													3	29					0	0	1	0	0
POTEC	388468	broad.mit.edu	37	18	14513764	14513764	+	Missense_Mutation	SNP	C	C	T			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr18:14513764C>T	ENST00000358970.5	-	10	1429	c.1430G>A	c.(1429-1431)cGg>cAg	p.R477Q		NM_001137671.1	NP_001131143.1	B2RU33	POTEC_HUMAN	POTE ankyrin domain family, member C	477								p.R477Q(12)		NS(2)|breast(1)|endometrium(9)|kidney(13)|lung(14)|prostate(3)|skin(6)|soft_tissue(1)|urinary_tract(3)	52						AAGTTGTTTCCGGGTATCATT	0.358000													4	197					0	0	1	0	0
PPP1R13L	10848	broad.mit.edu	37	19	45885941	45885941	+	Silent	SNP	G	G	A			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr19:45885941G>A	ENST00000418234.2	-	12	2370	c.2292C>T	c.(2290-2292)taC>taT	p.Y764Y	PPP1R13L_ENST00000360957.5_Silent_p.Y764Y	NM_001142502.1	NP_001135974.1	Q8WUF5	IASPP_HUMAN	protein phosphatase 1, regulatory subunit 13 like	764	SH3.				apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	transcription corepressor activity|transcription factor binding			breast(1)|endometrium(4)|kidney(1)|large_intestine(1)|lung(14)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	26		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.0182)		CCCAGAGAGCGTACACTGCCC	0.662000													32	38					0	0	1	0	0
KRTAP4-11	653240	broad.mit.edu	37	17	39274415	39274415	+	Silent	SNP	C	C	T	rs425487	by1000genomes	TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr17:39274415C>T	ENST00000391413.2	-	1	191	c.153G>A	c.(151-153)agG>agA	p.R51R		NM_033059.3	NP_149048.2	Q9BYQ6	KR411_HUMAN	keratin associated protein 4-11	51	27 X 5 AA repeats of C-C-[GIKRQVHEL]- [SPTR]-[STVQRMC].		Missing (in allele KAP4.14).			keratin filament		p.R51R(6)		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)			AGCACTGGGGCCTGCAGCAGC	0.667000													5	61					0	0	1	0	0
SGSM1	129049	broad.mit.edu	37	22	25243680	25243680	+	Silent	SNP	C	C	G			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr22:25243680C>G	ENST00000400358.4	+	4	276	c.219C>G	c.(217-219)ctC>ctG	p.L73L	SGSM1_ENST00000400359.4_Silent_p.L73L	NM_001098497.1|NM_001098498.1	NP_001091967.1|NP_001091968.1	Q2NKQ1	SGSM1_HUMAN	small G protein signaling modulator 1	73	RUN.					Golgi apparatus	Rab GTPase activator activity			NS(2)|breast(1)|central_nervous_system(2)|endometrium(5)|kidney(2)|large_intestine(14)|lung(10)|ovary(2)|pancreas(1)|prostate(1)|upper_aerodigestive_tract(1)	41						TTGCAGCCCTCTTTATGAAAG	0.617000													31	7					0	0	1	0	0
ANKRD36C	400986	broad.mit.edu	37	2	96593016	96593016	+	Missense_Mutation	SNP	C	C	A	rs79307257	by1000genomes	TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr2:96593016C>A	ENST00000456556.1	-	28	1969	c.1885G>T	c.(1885-1887)Gat>Tat	p.D629Y						ankyrin repeat domain 36C									p.D629Y(1)		breast(1)|endometrium(8)|kidney(5)|lung(4)	18						GAAACAGAATCTTTCTCATCA	0.318000													5	119					0.000602214	0.000625831	1	1	0
RBBP5	5929	broad.mit.edu	37	1	205070793	205070793	+	Missense_Mutation	SNP	G	G	C			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr1:205070793G>C	ENST00000264515.6	-	6	708	c.567C>G	c.(565-567)ttC>ttG	p.F189L	RBBP5_ENST00000367164.1_Missense_Mutation_p.F189L	NM_001193273.1|NM_005057.3	NP_001180202.1|NP_005048.2	Q15291	RBBP5_HUMAN	retinoblastoma binding protein 5	189					histone H3-K4 methylation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription, DNA-dependent	MLL1 complex|Set1C/COMPASS complex	methylated histone residue binding|transcription regulatory region DNA binding			cervix(1)|kidney(3)|large_intestine(4)|lung(14)|ovary(1)|pancreas(1)|prostate(2)|upper_aerodigestive_tract(1)	27	Breast(84;0.0505)		BRCA - Breast invasive adenocarcinoma(75;0.0923)			TTGTCACTCTGAAGGAAGCAA	0.393000													117	143					0	0	1	0	0
FLG2	388698	broad.mit.edu	37	1	152326017	152326017	+	Missense_Mutation	SNP	C	C	A			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr1:152326017C>A	ENST00000388718.5	-	3	4317	c.4245G>T	c.(4243-4245)agG>agT	p.R1415S	FLG-AS1_ENST00000445097.1_RNA|FLG-AS1_ENST00000392688.2_RNA	NM_001014342.2	NP_001014364.1	Q5D862	FILA2_HUMAN	filaggrin family member 2	1415							calcium ion binding|structural molecule activity			NS(2)|breast(7)|cervix(3)|endometrium(11)|kidney(9)|large_intestine(24)|liver(1)|lung(85)|ovary(12)|pancreas(1)|prostate(6)|skin(17)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(5)	188	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TTCCAGTTGTCCTGGACCCTC	0.527000													8	511					0.00307968	0.0031389	1	1	0
MBD5	0	broad.mit.edu	37	2	149227911	149227911	+	Missense_Mutation	SNP	G	G	A			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr2:149227911G>A	ENST00000407073.1	+	9	3396	c.2399G>A	c.(2398-2400)gGc>gAc	p.G800D	MBD5_ENST00000404807.1_Missense_Mutation_p.G800D	NM_018328.4	NP_060798.2	Q9P267	MBD5_HUMAN	methyl-CpG binding domain protein 5	800						chromosome|nucleus	chromatin binding|DNA binding			NS(1)|breast(4)|central_nervous_system(1)|endometrium(8)|kidney(1)|large_intestine(16)|lung(22)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(3)	62				BRCA - Breast invasive adenocarcinoma(221;0.0569)		AGTCAGTCGGGCATGGCTTTA	0.453000													4	195					0	0	1	0	0
LTBP3	4054	broad.mit.edu	37	11	65314941	65314941	+	Silent	SNP	C	C	T			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr11:65314941C>T	ENST00000301873.5	-	14	2344	c.2076G>A	c.(2074-2076)cgG>cgA	p.R692R	LTBP3_ENST00000536982.1_Silent_p.R318R|LTBP3_ENST00000532932.1_Silent_p.R122R|LTBP3_ENST00000322147.4_Silent_p.R692R	NM_001130144.2	NP_001123616.1	Q9NS15	LTBP3_HUMAN	latent transforming growth factor beta binding protein 3	692	Cys-rich.|EGF-like 5; calcium-binding (Potential).					extracellular region	calcium ion binding|growth factor binding			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(2)|lung(9)|prostate(2)|upper_aerodigestive_tract(3)	23						AGGCTTTGAGCCGGTAGCCGG	0.627000													4	131					0	0	1	0	0
BICC1	80114	broad.mit.edu	37	10	60553271	60553271	+	Missense_Mutation	SNP	G	G	C			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr10:60553271G>C	ENST00000373886.3	+	9	1079	c.1075G>C	c.(1075-1077)Gat>Cat	p.D359H		NM_001080512.1	NP_001073981.1	Q9H694	BICC1_HUMAN	bicaudal C homolog 1 (Drosophila)	359					multicellular organismal development		RNA binding			breast(1)|cervix(1)|endometrium(3)|kidney(1)|large_intestine(9)|lung(22)|ovary(2)|prostate(1)|skin(3)|urinary_tract(1)	44						GTTGATGTTTGATATGAAGGA	0.358000													5	104					0	0	1	0	0
AC024560.3	0	broad.mit.edu	37	3	197348646	197348646	+	RNA	SNP	T	T	C	rs138265355	by1000genomes	TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr3:197348646T>C	ENST00000418868.1	-	0	613					NR_003266.2																						TGGGCCTGCCTGCCCTTTCCA	0.532000													4	103					0	0	1	0	0
TUBB8P7	0	broad.mit.edu	37	16	90161618	90161618	+	RNA	SNP	C	C	T	rs13338202	by1000genomes	TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr16:90161618C>T	ENST00000567960.1	+	0	354				TUBB8P7_ENST00000564451.1_RNA														p.D118D(2)									CAGTGATGGACGTTGTCAGAA	0.607000													6	89					0	0	1	0	0
MMP27	64066	broad.mit.edu	37	11	102567138	102567138	+	Missense_Mutation	SNP	G	G	T			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr11:102567138G>T	ENST00000260229.4	-	6	957	c.866C>A	c.(865-867)aCa>aAa	p.T289K		NM_022122.2	NP_071405.2	Q9H306	MMP27_HUMAN	matrix metallopeptidase 27	289	Hemopexin-like 1.				collagen catabolic process|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			NS(1)|breast(2)|central_nervous_system(1)|cervix(1)|endometrium(2)|kidney(1)|large_intestine(4)|liver(2)|lung(12)|ovary(2)|prostate(2)|skin(11)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	45	all_cancers(8;0.000843)|all_epithelial(12;0.00362)|Lung NSC(15;0.21)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0509)|Lung(13;0.0696)|LUSC - Lung squamous cell carcinoma(19;0.13)|all cancers(10;0.176)	BRCA - Breast invasive adenocarcinoma(274;0.0151)		GCGGAAAGTTGTGATAGCGTC	0.413000													42	54					3.76604e-16	4.07347e-16	1	1	0
POLG	5428	broad.mit.edu	37	15	89862284	89862284	+	Missense_Mutation	SNP	C	C	A	rs121918049		TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr15:89862284C>A	ENST00000268124.5	-	20	3484	c.3151G>T	c.(3151-3153)Ggg>Tgg	p.G1051W	POLG_ENST00000442287.2_Missense_Mutation_p.G1051W	NM_001126131.1|NM_002693.2	NP_001119603.1|NP_002684.1	P54098	DPOG1_HUMAN	polymerase (DNA directed), gamma	1051			G -> R (in SANDO).		base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			breast(2)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(9)|lung(12)|ovary(1)|prostate(3)|urinary_tract(2)	33	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			TCTGTGCCCCCCTTCCATGCC	0.532000								DNA polymerases (catalytic subunits)					4	173					1	1	1	1	0
CDH15	1013	broad.mit.edu	37	16	89261332	89261332	+	Silent	SNP	C	C	T			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr16:89261332C>T	ENST00000289746.2	+	14	2279	c.2214C>T	c.(2212-2214)gaC>gaT	p.D738D		NM_004933.2	NP_004924.1	P55291	CAD15_HUMAN	cadherin 15, type 1, M-cadherin (myotubule)	738					adherens junction organization|cell junction assembly|homophilic cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	calcium ion binding			central_nervous_system(1)|endometrium(2)|large_intestine(1)|lung(9)|ovary(1)|prostate(1)|skin(2)|urinary_tract(1)	18				BRCA - Breast invasive adenocarcinoma(80;0.0261)		TCATCTATGACTACGAGGGTG	0.622000													22	56					0	0	1	0	0
MLLT3	4300	broad.mit.edu	37	9	20414343	20414343	+	Silent	SNP	A	A	G			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr9:20414343A>G	ENST00000380338.4	-	5	787	c.501T>C	c.(499-501)agT>agC	p.S167S	MLLT3_ENST00000429426.2_Silent_p.S164S|MLLT3_ENST00000475957.1_5'UTR|MLLT3_ENST00000355930.6_5'UTR	NM_004529.2	NP_004520.2	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 3	167	Poly-Ser.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding	p.S167S(19)		central_nervous_system(1)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(6)|lung(24)|ovary(1)|prostate(4)|skin(1)|urinary_tract(7)	66				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		tgctgctgctactgctgctgc	0.532000			T	MLL	ALL								8	98					0	0	1	0	0
TRIM49C	642612	broad.mit.edu	37	11	89774252	89774252	+	Missense_Mutation	SNP	G	G	A	rs145791878	by1000genomes	TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr11:89774252G>A	ENST00000448984.1	+	8	1222	c.893G>A	c.(892-894)aGt>aAt	p.S298N	TRIM49C_ENST00000432771.1_Intron	NM_001195234.1	NP_001182163.1	P0CI26	T49L2_HUMAN	tripartite motif containing 49C	298	B30.2/SPRY.					intracellular	zinc ion binding	p.S298N(4)		endometrium(3)|kidney(1)|lung(4)	8						GAAGCCAACAGTGATATCTTT	0.323000													4	90					0	0	1	0	0
CROCCP2	0	broad.mit.edu	37	1	16945409	16945409	+	RNA	SNP	T	T	A	rs13566		TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr1:16945409T>A	ENST00000412962.1	-	0	2110																											GCGGGATAGCTCGGTGGAGAG	0.612000													7	26					0	0	1	0	0
SRPK1	6732	broad.mit.edu	37	6	35810383	35810383	+	Splice_Site	SNP	T	T	A			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr6:35810383T>A	ENST00000373825.2	-	14	1906		c.e14-2		SRPK1_ENST00000423325.2_Splice_Site|SRPK1_ENST00000373822.1_Splice_Site			Q96SB4	SRPK1_HUMAN	SRSF protein kinase 1						cell differentiation|chromosome segregation|interspecies interaction between organisms|intracellular protein kinase cascade|mRNA processing|negative regulation of viral genome replication|positive regulation of viral genome replication|regulation of mRNA processing|RNA splicing	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity	p.?(2)		endometrium(2)|large_intestine(10)|lung(6)|ovary(1)|prostate(1)|upper_aerodigestive_tract(1)	21						TTCAAAGGCCTAAAAAAAAAA	0.418000													3	36					0	0	1	0	0
CRY1	1407	broad.mit.edu	37	12	107391082	107391082	+	Silent	SNP	G	G	A			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr12:107391082G>A	ENST00000008527.5	-	10	2442	c.1575C>T	c.(1573-1575)agC>agT	p.S525S		NM_004075.3	NP_004066.1	Q16526	CRY1_HUMAN	cryptochrome 1 (photolyase-like)	525					DNA repair|protein-chromophore linkage|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	blue light photoreceptor activity|DNA photolyase activity|double-stranded DNA binding|nucleotide binding|protein binding			NS(2)|breast(2)|central_nervous_system(1)|cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(11)|ovary(3)|skin(1)	29						TTCCACTGCTGCTACAACCTG	0.343000													5	488					0	0	1	0	0
KANK1	23189	broad.mit.edu	37	9	732477	732477	+	Silent	SNP	G	G	A			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr9:732477G>A	ENST00000382303.1	+	10	3757	c.3105G>A	c.(3103-3105)gaG>gaA	p.E1035E	KANK1_ENST00000489369.1_3'UTR|KANK1_ENST00000382293.3_Silent_p.E877E|KANK1_ENST00000382297.2_Silent_p.E1035E	NM_001256876.1	NP_001243805.1	Q14678	KANK1_HUMAN	KN motif and ankyrin repeat domains 1	1035					negative regulation of actin filament polymerization	cytoplasm				autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|cervix(1)|endometrium(7)|kidney(3)|large_intestine(9)|lung(8)|ovary(3)|pancreas(1)|prostate(3)|stomach(4)|upper_aerodigestive_tract(1)	43		Lung NSC(10;9.84e-12)|all_lung(10;1.02e-11)|Breast(48;0.128)		Epithelial(6;0.000153)|OV - Ovarian serous cystadenocarcinoma(1;0.000358)|Lung(218;0.0222)		TTGAAGAAGAGGAGGAGGAGG	0.468000													4	168					0	0	1	0	0
CD37	0	broad.mit.edu	37	19	49840216	49840216	+	Missense_Mutation	SNP	G	G	A			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr19:49840216G>A	ENST00000535669.2	+	3	307	c.193G>A	c.(193-195)Gga>Aga	p.G65R	CTC-301O7.4_ENST00000358234.4_lincRNA|CD37_ENST00000323906.4_Missense_Mutation_p.G65R|CD37_ENST00000596426.1_3'UTR|CD37_ENST00000426897.2_5'UTR|CD37_ENST00000598095.1_5'UTR			P11049	CD37_HUMAN	CD37 molecule	65						integral to membrane				breast(1)|endometrium(1)|large_intestine(3)|lung(5)|upper_aerodigestive_tract(1)	11		all_lung(116;2.81e-06)|Lung NSC(112;5.89e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		OV - Ovarian serous cystadenocarcinoma(262;0.00088)|GBM - Glioblastoma multiforme(486;0.0443)		GGCCATCTCAGGAATCTTCAC	0.632000													3	51					0	0	1	0	0
TIMM10	26519	broad.mit.edu	37	11	57296266	57296266	+	Missense_Mutation	SNP	C	C	T			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr11:57296266C>T	ENST00000257245.4	-	3	349	c.197G>A	c.(196-198)gGc>gAc	p.G66D	TIMM10_ENST00000525587.1_Missense_Mutation_p.G66D|TIMM10_ENST00000525158.1_Missense_Mutation_p.G66D	NM_012456.2	NP_036588.1	P62072	TIM10_HUMAN	translocase of inner mitochondrial membrane 10 homolog (yeast)	66					protein import into mitochondrial inner membrane|sensory perception of sound|transmembrane transport	mitochondrial inner membrane presequence translocase complex|mitochondrial intermembrane space protein transporter complex	zinc ion binding			cervix(1)|large_intestine(2)	3						CAACTTTTTGCCCATCCGCTC	0.542000													4	154					0	0	1	0	0
TUBB8P7	0	broad.mit.edu	37	16	90162462	90162462	+	RNA	SNP	A	A	G			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr16:90162462A>G	ENST00000567960.1	+	0	1198				TUBB8P7_ENST00000564451.1_RNA														p.T398T(1)									ACTGGTACACAGGCGAGGGCA	0.522000													5	178					0	0	1	0	0
FANCI	55215	broad.mit.edu	37	15	89804896	89804896	+	Missense_Mutation	SNP	T	T	A			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr15:89804896T>A	ENST00000310775.7	+	5	455	c.369T>A	c.(367-369)aaT>aaA	p.N123K	FANCI_ENST00000300027.8_Missense_Mutation_p.N123K|FANCI_ENST00000567996.1_Missense_Mutation_p.N123K|FANCI_ENST00000451393.2_5'UTR	NM_001113378.1	NP_001106849.1	Q9NVI1	FANCI_HUMAN	Fanconi anemia, complementation group I	123					cell cycle|DNA repair	nucleoplasm	protein binding			breast(1)|cervix(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(7)|ovary(2)|pancreas(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	31	Lung NSC(78;0.0472)|all_lung(78;0.089)					GCCTAGTGAATGGAAAATCTT	0.398000								Involved in tolerance or repair of DNA crosslinks	Fanconi Anemia				123	213					0	0	1	0	0
NWD1	284434	broad.mit.edu	37	19	16902242	16902242	+	Missense_Mutation	SNP	G	G	A			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr19:16902242G>A	ENST00000524140.2	+	14	3440	c.3022G>A	c.(3022-3024)Gtg>Atg	p.V1008M	NWD1_ENST00000549814.1_Missense_Mutation_p.V1008M|NWD1_ENST00000523826.1_Missense_Mutation_p.V802M|NWD1_ENST00000379808.3_Missense_Mutation_p.V1008M|NWD1_ENST00000339803.6_Missense_Mutation_p.V873M|NWD1_ENST00000552788.1_Missense_Mutation_p.V1008M	NM_001007525.3	NP_001007526.3	Q149M9	NWD1_HUMAN	NACHT and WD repeat domain containing 1	1008							ATP binding			NS(3)|breast(2)|cervix(1)|endometrium(8)|large_intestine(17)|lung(18)|ovary(2)|pancreas(3)|prostate(5)|skin(5)|upper_aerodigestive_tract(2)|urinary_tract(1)	67						GTGCATGGCCGTGCTGGCCTC	0.517000													71	90					0	0	1	0	0
CDK5RAP3	80279	broad.mit.edu	37	17	46051813	46051813	+	Splice_Site	SNP	A	A	C			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr17:46051813A>C	ENST00000536708.2	+	5	517	c.409_splice	c.e5+1	p.L136_splice	CDK5RAP3_ENST00000338399.4_Splice_Site_p.L111_splice	NM_001278197.1	NP_001265126.1	Q96JB5	CK5P3_HUMAN	CDK5 regulatory subunit associated protein 3	111					brain development|regulation of cyclin-dependent protein kinase activity|regulation of neuron differentiation		neuronal Cdc2-like kinase binding			NS(1)|central_nervous_system(2)|cervix(3)|endometrium(3)|large_intestine(2)|lung(5)|prostate(1)|skin(1)	18						ACACCTACTTAGGTAAAGTGG	0.498000													38	79					0	0	1	0	0
ACAN	176	broad.mit.edu	37	15	89402355	89402355	+	Missense_Mutation	SNP	A	A	T			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr15:89402355A>T	ENST00000439576.2	+	12	6913	c.6539A>T	c.(6538-6540)gAg>gTg	p.E2180V	ACAN_ENST00000352105.7_Missense_Mutation_p.E2180V|ACAN_ENST00000559004.1_Missense_Mutation_p.E2180V|ACAN_ENST00000561243.1_Missense_Mutation_p.E2180V	NM_013227.3	NP_037359.3	E7EX88	E7EX88_HUMAN	aggrecan	2180					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)			GTGGGGACAGAGGCACCAGGC	0.592000													4	130					0	0	1	0	0
ANKRD36C	400986	broad.mit.edu	37	2	96593000	96593000	+	Missense_Mutation	SNP	A	A	G	rs111976783		TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr2:96593000A>G	ENST00000456556.1	-	28	1985	c.1901T>C	c.(1900-1902)aTa>aCa	p.I634T						ankyrin repeat domain 36C									p.I634T(1)		breast(1)|endometrium(8)|kidney(5)|lung(4)	18						TTCTGTGGCTATATTTGAAAC	0.338000													5	112					0	0	1	0	0
CCNI	10983	broad.mit.edu	37	4	77969505	77969505	+	Missense_Mutation	SNP	T	T	C	rs139547927	byFrequency	TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr4:77969505T>C	ENST00000237654.4	-	7	1577	c.1001A>G	c.(1000-1002)tAt>tGt	p.Y334C	CCNI_ENST00000537948.1_Missense_Mutation_p.Y320C	NM_006835.2	NP_006826.1	Q14094	CCNI_HUMAN	cyclin I	334					spermatogenesis					NS(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(2)|lung(1)|ovary(1)|prostate(1)	9						GATTCCATCATAGAAGTCATC	0.453000													61	112					0	0	1	0	0
AC226119.5	0	broad.mit.edu	37	4	3948596	3948596	+	RNA	SNP	C	C	T			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr4:3948596C>T	ENST00000281228.8	-	0	789				FAM86EP_ENST00000313946.8_RNA																							AGCCAGCCTCCGCAGGACCCC	0.587000													5	83					0	0	1	0	0
DENND5A	23258	broad.mit.edu	37	11	9187392	9187392	+	Silent	SNP	G	G	A			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr11:9187392G>A	ENST00000328194.3	-	11	2594	c.2274C>T	c.(2272-2274)tgC>tgT	p.C758C	DENND5A_ENST00000527700.1_Silent_p.C101C|DENND5A_ENST00000530044.1_Silent_p.C758C	NM_001243254.1|NM_015213.3	NP_001230183.1|NP_056028.2	Q6IQ26	DEN5A_HUMAN	DENN/MADD domain containing 5A	758										breast(1)|endometrium(7)|kidney(2)|large_intestine(8)|liver(1)|lung(16)|prostate(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	39						CCTTATTGCGGCATTCCTTCA	0.498000													4	150					0	0	1	0	0
ANKRD36C	400986	broad.mit.edu	37	2	96593025	96593025	+	Missense_Mutation	SNP	C	C	T	rs75189823	by1000genomes	TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr2:96593025C>T	ENST00000456556.1	-	28	1960	c.1876G>A	c.(1876-1878)Gat>Aat	p.D626N						ankyrin repeat domain 36C									p.D626N(1)		breast(1)|endometrium(8)|kidney(5)|lung(4)	18						TCTTTCTCATCACTTGTAGCC	0.318000													5	114					0	0	1	0	0
MSLNL	401827	broad.mit.edu	37	16	819596	819596	+	Silent	SNP	C	C	T			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr16:819596C>T	ENST00000293892.3	-	16	2993	c.2994G>A	c.(2992-2994)gcG>gcA	p.A998A	MSLNL_ENST00000442466.1_Silent_p.A647A			Q96KJ4	MSLNL_HUMAN	mesothelin-like	647					cell adhesion	integral to membrane				breast(4)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|lung(15)|ovary(2)|pancreas(2)|prostate(4)|skin(1)|urinary_tract(2)	36						GCAGGGCCATCGCCAGGGGCA	0.652000													3	42					0	0	1	0	0
ERCC8	1161	broad.mit.edu	37	5	60240835	60240835	+	Translation_Start_Site	SNP	T	T	C			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr5:60240835T>C	ENST00000426742.2	-	0	43				ERCC8_ENST00000543101.1_De_novo_Start_OutOfFrame|ERCC8_ENST00000265038.5_Start_Codon_SNP_p.M1V			Q13216	ERCC8_HUMAN	excision repair cross-complementing rodent repair deficiency, complementation group 8						positive regulation of DNA repair|proteasomal ubiquitin-dependent protein catabolic process|protein autoubiquitination|protein polyubiquitination|response to oxidative stress|response to UV|transcription-coupled nucleotide-excision repair	Cul4A-RING ubiquitin ligase complex|nuclear matrix|nucleoplasm|nucleotide-excision repair complex|soluble fraction	protein binding|protein complex binding			breast(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(6)|upper_aerodigestive_tract(1)	14		Lung NSC(810;1.51e-06)|Prostate(74;0.0322)|Ovarian(174;0.0481)|Breast(144;0.077)				AACCCCAGCATATCGTGTCCT	0.557000													5	87					0	0	1	0	0
OXER1	165140	broad.mit.edu	37	2	42990174	42990174	+	Silent	SNP	G	G	A	rs145580414	byFrequency	TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr2:42990174G>A	ENST00000378661.2	-	1	1227	c.1146C>T	c.(1144-1146)gaC>gaT	p.D382D		NM_148962.4	NP_683765.1	Q8TDS5	OXER1_HUMAN	oxoeicosanoid (OXE) receptor 1	382					regulation of cAMP biosynthetic process	integral to membrane|plasma membrane	5(S)-hydroxyperoxy-6E,8Z,11Z,14Z-icosatetraenoic acid binding|5-hydroxy-6E,8Z,11Z,14Z-icosatetraenoic acid binding|5-oxo-6E,8Z,11Z,14Z-icosatetraenoic acid binding|G-protein coupled receptor activity			breast(1)|central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(3)|lung(2)|prostate(1)	10						AGGAGCTCTCGTCGCTCACTG	0.667000													37	66					0	0	1	0	0
P4HA2	8974	broad.mit.edu	37	5	131534588	131534588	+	Missense_Mutation	SNP	T	T	C			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr5:131534588T>C	ENST00000401867.1	-	12	1857	c.1289A>G	c.(1288-1290)cAc>cGc	p.H430R	P4HA2_ENST00000166534.4_Missense_Mutation_p.H430R|P4HA2_ENST00000379100.2_Missense_Mutation_p.H430R|P4HA2_ENST00000379086.1_Missense_Mutation_p.H430R|P4HA2_ENST00000360568.3_Missense_Mutation_p.H430R|P4HA2_ENST00000379104.2_Missense_Mutation_p.H430R			O15460	P4HA2_HUMAN	prolyl 4-hydroxylase, alpha polypeptide II	430	Fe2OG dioxygenase.					endoplasmic reticulum lumen	electron carrier activity|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity|protein binding			breast(1)|endometrium(3)|kidney(2)|large_intestine(4)|lung(8)|prostate(4)|skin(1)|upper_aerodigestive_tract(1)	24		all_cancers(142;0.103)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)		L-Proline(DB00172)|Succinic acid(DB00139)	GAAGTCGAAGTGCGGTTCATA	0.483000													4	78					0	0	1	0	0
LBR	3930	broad.mit.edu	37	1	225611758	225611758	+	Missense_Mutation	SNP	G	G	A			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr1:225611758G>A	ENST00000338179.2	-	2	145	c.20C>T	c.(19-21)gCc>gTc	p.A7V	LBR_ENST00000272163.4_Missense_Mutation_p.A7V	NM_194442.2	NP_919424.1	Q14739	LBR_HUMAN	lamin B receptor	7	Nucleoplasmic (Potential).				cholesterol biosynthetic process	integral to nuclear inner membrane	chromo shadow domain binding|delta14-sterol reductase activity|DNA binding|lamin binding|receptor activity			breast(1)|endometrium(2)|kidney(1)|large_intestine(5)|lung(5)|ovary(2)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	22	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		TTCACCATCGGCAAATTTCCT	0.373000													6	625					0	0	1	0	0
MLLT3	4300	broad.mit.edu	37	9	20414340	20414340	+	Silent	SNP	G	G	A			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr9:20414340G>A	ENST00000380338.4	-	5	790	c.504C>T	c.(502-504)agC>agT	p.S168S	MLLT3_ENST00000429426.2_Silent_p.S165S|MLLT3_ENST00000475957.1_5'UTR|MLLT3_ENST00000355930.6_5'UTR	NM_004529.2	NP_004520.2	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 3	168	Poly-Ser.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding	p.S168S(5)		central_nervous_system(1)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(6)|lung(24)|ovary(1)|prostate(4)|skin(1)|urinary_tract(7)	66				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		tgctgctgctgctactgctgc	0.537000			T	MLL	ALL								8	99					0	0	1	0	0
HLA-A	3105	broad.mit.edu	37	6	29910607	29910607	+	Silent	SNP	G	G	C	rs72555397		TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr6:29910607G>C	ENST00000396634.1	+	4	488	c.147G>C	c.(145-147)gtG>gtC	p.V49V	HLA-A_ENST00000376809.5_Silent_p.V49V|HLA-A_ENST00000376802.2_Silent_p.V49V|HLA-A_ENST00000376806.5_Silent_p.V49V			P30443	1A01_HUMAN	major histocompatibility complex, class I, A	49	Alpha-1.				antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to plasma membrane|MHC class I protein complex	MHC class I receptor activity	p.V49V(2)		central_nervous_system(2)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(10)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(5)|urinary_tract(2)	30						TCATCGCCGTGGGCTACGTGG	0.692000									Osteosarcoma, Familial Clustering of;Naso-/Oropharyngeal/Laryngeal Cancer, Familial Clustering of;Melanoma, Familial Clustering of;Lichen Sclerosis et Atrophicus, Familial Clustering of	Multiple Myeloma(9;0.094)			4	67					0	0	1	0	0
NUP188	23511	broad.mit.edu	37	9	131767807	131767807	+	Missense_Mutation	SNP	C	C	G			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr9:131767807C>G	ENST00000372577.2	+	40	4756	c.4735C>G	c.(4735-4737)Cag>Gag	p.Q1579E		NM_015354.1	NP_056169.1	Q5SRE5	NU188_HUMAN	nucleoporin 188kDa	1579					carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			breast(2)|central_nervous_system(3)|endometrium(6)|kidney(4)|large_intestine(9)|lung(20)|ovary(6)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(3)	60						TCTGCTGGATCAGGTACTGCC	0.577000													4	220					0	0	1	0	0
GTF2IRD2P1	0	broad.mit.edu	37	7	72658179	72658179	+	RNA	SNP	T	T	C	rs147293416	by1000genomes	TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr7:72658179T>C	ENST00000425256.1	-	0	1732					NR_002164.1																						cagagtgatttcggatgaatt	0.507000													4	129					0	0	1	0	0
FLG2	388698	broad.mit.edu	37	1	152324558	152324559	+	Frame_Shift_Del	DEL	TG	TG	-	rs140875805	byFrequency	TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr1:152324558_152324559delTG	ENST00000388718.5	-	3	5775_5776	c.5703_5704delCA	c.(5701-5706)cagcfs	p.HS1901fs	FLG-AS1_ENST00000445097.1_RNA|FLG-AS1_ENST00000392688.2_RNA	NM_001014342.2	NP_001014364.1	Q5D862	FILA2_HUMAN	filaggrin family member 2	1901							calcium ion binding|structural molecule activity	p.H1901fs*30(1)		NS(2)|breast(7)|cervix(3)|endometrium(11)|kidney(9)|large_intestine(24)|liver(1)|lung(85)|ovary(12)|pancreas(1)|prostate(6)|skin(17)|stomach(2)|upper_aerodigestive_tract(3)|urinary_tract(5)	188	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGGCTTGGCTGTGTGTGTGTC	0.515													7	502	---	---	---	---					
PTPN14	5784	broad.mit.edu	37	1	214557049	214557051	+	In_Frame_Del	DEL	CCT	CCT	-			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr1:214557049_214557051delCCT	ENST00000366956.5	-	13	2341_2343	c.2147_2149delAGG	c.(2146-2151)gct>g	p.EA716del	PTPN14_ENST00000543945.1_3'UTR	NM_005401.4	NP_005392.2	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type 14	716	Poly-Glu.				lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding	p.E716delE(1)		NS(2)|breast(3)|cervix(1)|endometrium(7)|kidney(2)|large_intestine(9)|liver(3)|lung(21)|ovary(1)|pancreas(1)|prostate(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	58				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		GATTCTGGAGCCTCCTCCTCCTC	0.626													7	100	---	---	---	---					
CCDC150	284992	broad.mit.edu	37	2	197531519	197531519	+	Frame_Shift_Del	DEL	A	A	-	rs75642251		TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr2:197531519delA	ENST00000389175.4	+	7	974	c.839delA	c.(838-840)cafs	p.Q280fs	CCDC150_ENST00000472405.2_Intron|CCDC150_ENST00000272831.7_Intron|CCDC150_ENST00000423093.2_Intron	NM_001080539.1	NP_001074008.1	Q8NCX0	CC150_HUMAN	coiled-coil domain containing 150	280										breast(3)|endometrium(6)|kidney(1)|large_intestine(6)|lung(14)|prostate(1)|stomach(1)|upper_aerodigestive_tract(1)	33						GCCCAGGAACAAAAAAAAAAA	0.373													7	42	---	---	---	---					
ACTN3	89	broad.mit.edu	37	11	66321927	66321928	+	RNA	INS	-	-	AA	rs141435934		TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr11:66321927_66321928insAA	ENST00000513398.1	+	0	566				ACTN3_ENST00000502692.1_RNA	NM_001104.2	NP_001095.1	Q08043	ACTN3_HUMAN	actinin, alpha 3 (gene/pseudogene)						focal adhesion assembly|muscle filament sliding|regulation of apoptosis	actin filament|cytosol|focal adhesion|pseudopodium	actin binding|calcium ion binding|integrin binding|protein homodimerization activity|structural constituent of muscle			breast(1)|endometrium(4)|kidney(1)|large_intestine(2)|lung(2)	10						gaccctgtctcaaaaaaaaaaa	0.540													3	4	---	---	---	---					
PRB2	653247	broad.mit.edu	37	12	11546506	11546508	+	In_Frame_Del	DEL	TTG	TTG	-			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr12:11546506_11546508delTTG	ENST00000389362.4	-	3	539_541	c.504_506delCAA	c.(502-507)aag>aa	p.NK168del	PRB1_ENST00000546254.1_Intron	NM_006248.3	NP_006239.3			proline-rich protein BstNI subfamily 2											NS(1)|breast(1)|endometrium(2)|kidney(3)|large_intestine(3)|lung(14)|pancreas(1)|prostate(5)|skin(4)|stomach(2)|urinary_tract(1)	37		all_cancers(2;0.00558)|Acute lymphoblastic leukemia(2;3.94e-11)|all_hematologic(2;3.6e-09)	OV - Ovarian serous cystadenocarcinoma(49;0.185)			ACTTCGGGACTTGTTGTCTCCTT	0.596													9	667	---	---	---	---					
VPS36	51028	broad.mit.edu	37	13	52990060	52990061	+	Splice_Site	INS	-	-	A			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr13:52990060_52990061insA	ENST00000378060.4	-	14	1095		c.e14-2			NM_016075.2	NP_057159.2	Q86VN1	VPS36_HUMAN	vacuolar protein sorting 36 homolog (S. cerevisiae)						cellular membrane organization|endosome transport|protein transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|late endosome|membrane|nucleus	lipid binding	p.?(1)		breast(1)|endometrium(1)|kidney(1)|large_intestine(4)|lung(7)|skin(1)|upper_aerodigestive_tract(2)	17		Breast(56;0.000207)|Lung NSC(96;0.00212)|Hepatocellular(98;0.065)|Prostate(109;0.0771)|all_neural(104;0.173)		GBM - Glioblastoma multiforme(99;3.14e-08)		AGCAGCAACCTAAAAAAAAACA	0.396													9	247	---	---	---	---					
NF1	4763	broad.mit.edu	37	17	29556251	29556252	+	Frame_Shift_Ins	INS	-	-	T			TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr17:29556251_29556252insT	ENST00000358273.4	+	21	3001_3002	c.2618_2619insT	c.(2617-2619)caafs	p.Q873fs	NF1_ENST00000356175.3_Frame_Shift_Ins_p.Q873fs	NM_001042492.2	NP_001035957.1	P21359	NF1_HUMAN	neurofibromin 1	873			R -> C (in NF1).		actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.0?(8)|p.?(4)	NF1/ACCN1(2)	autonomic_ganglia(12)|breast(11)|central_nervous_system(72)|cervix(6)|endometrium(12)|haematopoietic_and_lymphoid_tissue(59)|kidney(9)|large_intestine(39)|liver(1)|lung(80)|ovary(20)|pancreas(2)|prostate(2)|skin(8)|soft_tissue(249)|stomach(2)|thyroid(1)|upper_aerodigestive_tract(5)|urinary_tract(9)	599		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		GTCAGTGAACGTAAGGGTTCTA	0.500			"""D, Mis, N, F, S, O"""		"""neurofibroma, glioma"""	"""neurofibroma, glioma"""			Neurofibromatosis, type 1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			83	34	---	---	---	---					
NCOA6	23054	broad.mit.edu	37	20	33330968	33330970	+	In_Frame_Del	DEL	TGC	TGC	-	rs140426729	byFrequency	TCGA-SQ-A6I6-01A-11D-A35I-08	TCGA-SQ-A6I6-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	87a58b14-0399-402c-bd38-486ace20b825	a328dc21-5dac-49c9-b491-f30daac020b9	g.chr20:33330968_33330970delTGC	ENST00000374796.2	-	12	5660_5662	c.3090_3092delGCA	c.(3088-3093)caa>ca	p.QQ1030del	NCOA6_ENST00000359003.2_In_Frame_Del_p.QQ1030del			Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	1030	CREBBP-binding region.|Gln-rich.|NCOA1-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			NS(2)|breast(6)|central_nervous_system(3)|cervix(1)|endometrium(9)|kidney(8)|large_intestine(16)|lung(37)|ovary(4)|prostate(5)|skin(13)|upper_aerodigestive_tract(2)|urinary_tract(1)	107						CATCATTtgttgctgctgctgct	0.576													8	189	---	---	---	---					
