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
ROBO3	64221	broad.mit.edu	37	11	124739959	124739959	+	Missense_Mutation	SNP	T	T	C			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr11:124739959T>C	ENST00000397801.1	+	4	953	c.761T>C	c.(760-762)gTa>gCa	p.V254A	ROBO3_ENST00000538940.1_Missense_Mutation_p.V232A	NM_022370.3	NP_071765.2	Q96MS0	ROBO3_HUMAN	roundabout, axon guidance receptor, homolog 3 (Drosophila)	254					axon midline choice point recognition	integral to membrane	receptor activity			breast(2)|central_nervous_system(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(5)|lung(17)|ovary(1)|prostate(3)|upper_aerodigestive_tract(1)	35	all_hematologic(175;0.215)	Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|Breast(109;0.0481)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.5e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0296)		GAAGTCATGGTACTGGGTAGG	0.522000													19	18					0	0	1	0	0
KIT	3815	broad.mit.edu	37	4	55575675	55575675	+	Missense_Mutation	SNP	G	G	A			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr4:55575675G>A	ENST00000288135.5	+	7	1298	c.1201G>A	c.(1201-1203)Gct>Act	p.A401T		NM_000222.2|NM_001093772.1	NP_000213.1|NP_001087241.1	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral oncogene homolog	401	Ig-like C2-type 4.				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			NS(8)|autonomic_ganglia(1)|bone(21)|breast(2)|central_nervous_system(4)|endometrium(10)|eye(12)|genital_tract(18)|haematopoietic_and_lymphoid_tissue(1820)|kidney(17)|large_intestine(17)|lung(27)|ovary(23)|pancreas(4)|prostate(1)|salivary_gland(15)|skin(228)|soft_tissue(4117)|stomach(3)|testis(55)|thymus(7)|upper_aerodigestive_tract(1)	6411	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	TGACGTCAATGCTGCCATAGC	0.368000		1	"""Mis, O"""		"""GIST, AML, TGCT, mastocytosis, mucosal melanoma"""	"""GIST, epithelioma"""	Piebald trait		Piebaldism;Mast Cell disease, Familial Clustering of;Gastrointestinal Stromal Tumors, Sporadic Multiple Primary;Familial Gastrointestinal Stromal Tumors				4	84					0	0	1	0	0
ARID3A	1820	broad.mit.edu	37	19	964334	964334	+	Missense_Mutation	SNP	C	C	A			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr19:964334C>A	ENST00000263620.3	+	5	1180	c.853C>A	c.(853-855)Ctc>Atc	p.L285I		NM_005224.2	NP_005215.1	Q99856	ARI3A_HUMAN	AT rich interactive domain 3A (BRIGHT-like)	285	ARID.					cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|lung(2)|ovary(1)	10		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAAGGGCGGCCTCGTGGAGGT	0.612000													3	24					0.150653	0.150653	1	1	0
TUBBP5	0	broad.mit.edu	37	9	141070173	141070173	+	RNA	SNP	G	G	A			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr9:141070173G>A	ENST00000503395.1	+	0	1253																											GGTGAGCTGCGGGCGAGGACT	0.647000													3	32					0	0	1	0	0
PAOX	196743	broad.mit.edu	37	10	135193918	135193918	+	Missense_Mutation	SNP	C	C	A			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr10:135193918C>A	ENST00000278060.5	+	2	680	c.597C>A	c.(595-597)agC>agA	p.S199R	PAOX_ENST00000357296.3_Missense_Mutation_p.S199R|PAOX_ENST00000368535.2_3'UTR|PAOX_ENST00000368539.4_Intron|PAOX_ENST00000480071.2_Missense_Mutation_p.S199R	NM_152911.2	NP_690875.1	Q6QHF9	PAOX_HUMAN	polyamine oxidase (exo-N4-amino)	337					polyamine biosynthetic process|xenobiotic metabolic process	peroxisomal matrix	polyamine oxidase activity			cervix(1)|endometrium(2)|kidney(2)|large_intestine(2)|lung(13)|ovary(1)|urinary_tract(2)	23		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;4.39e-07)|OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|Epithelial(32;1.94e-06)		GCACCCACAGCATGGACCTGG	0.627000													3	34					0.004672	0.00486667	1	1	0
LRRN2	10446	broad.mit.edu	37	1	204587794	204587794	+	Silent	SNP	G	G	A			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr1:204587794G>A	ENST00000367175.1	-	1	3539	c.1327C>T	c.(1327-1329)Ctg>Ttg	p.L443L	LRRN2_ENST00000367176.3_Silent_p.L443L|LRRN2_ENST00000367177.3_Silent_p.L443L			O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2	443	Ig-like C2-type.				cell adhesion	integral to membrane	receptor activity			central_nervous_system(3)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(3)|liver(1)|lung(22)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)	38	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			CGGCAATGCAGCACCATGCTC	0.632000													3	30					0	0	1	0	0
SYTL4	94121	broad.mit.edu	37	X	99945087	99945087	+	Missense_Mutation	SNP	T	T	A			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chrX:99945087T>A	ENST00000372981.1	-	8	979	c.793A>T	c.(793-795)Atc>Ttc	p.I265F	SYTL4_ENST00000454200.2_Missense_Mutation_p.I266F|SYTL4_ENST00000276141.6_Missense_Mutation_p.I265F|SYTL4_ENST00000263033.5_Missense_Mutation_p.I265F|SYTL4_ENST00000372989.1_Missense_Mutation_p.I265F|SYTL4_ENST00000455616.1_Missense_Mutation_p.I265F			Q96C24	SYTL4_HUMAN	synaptotagmin-like 4	265					exocytosis|intracellular protein transport	extrinsic to membrane|plasma membrane|synaptic vesicle|transport vesicle membrane	neurexin binding|phospholipid binding|Rab GTPase binding|transporter activity|zinc ion binding			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(13)|ovary(2)|prostate(1)|skin(2)	27					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GGCCTGAGGATTTTTCTGGTG	0.443000													8	40					0	0	1	0	0
PIF1	80119	broad.mit.edu	37	15	65108897	65108897	+	Missense_Mutation	SNP	G	G	A			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr15:65108897G>A	ENST00000268043.4	-	12	1836	c.1742C>T	c.(1741-1743)gCc>gTc	p.A581V	PIF1_ENST00000333425.6_Missense_Mutation_p.A581V|PIF1_ENST00000559239.1_Missense_Mutation_p.A581V			Q9H611	PIF1_HUMAN	PIF1 5'-to-3' DNA helicase	581	Hydrolyzes ATP in the presence of both magnesium and single-stranded DNA; weak activity in the presence of RNA or double-stranded DNA; No unwinding activity.				negative regulation of telomerase activity|regulation of telomere maintenance|viral genome replication	nuclear chromosome, telomeric region	ATP binding|ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 5'-3' DNA/RNA helicase activity|magnesium ion binding|single-stranded DNA-dependent ATP-dependent DNA helicase activity|telomeric DNA binding			kidney(1)|lung(1)	2						CCGAGAAAGGGCCACATAGGC	0.622000													8	60					0	0	1	0	0
SALL4	57167	broad.mit.edu	37	20	50407310	50407310	+	Missense_Mutation	SNP	C	C	T			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr20:50407310C>T	ENST00000217086.4	-	2	1823	c.1712G>A	c.(1711-1713)tGc>tAc	p.C571Y	SALL4_ENST00000371539.3_Intron|SALL4_ENST00000395997.3_Intron	NM_020436.3	NP_065169.1	Q9UJQ4	SALL4_HUMAN	spalt-like transcription factor 4	571					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(27)|ovary(5)|prostate(2)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	63						GACTCGGTGGCAAATGAGACA	0.547000													50	58					0	0	1	0	0
CSAG4	0	broad.mit.edu	37	X	151896589	151896589	+	RNA	SNP	C	C	A			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chrX:151896589C>A	ENST00000361201.4	-	0	351					NR_073432.1													p.L11F(1)		endometrium(2)|kidney(2)|lung(1)	5						GGTTGTTGGACAATGGGCTGG	0.557000													4	122					0.000602214	0.000716922	1	1	0
KBTBD8	84541	broad.mit.edu	37	3	67054375	67054375	+	Silent	SNP	G	G	T			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr3:67054375G>T	ENST00000295568.4	+	3	1037	c.906G>T	c.(904-906)ggG>ggT	p.G302G	KBTBD8_ENST00000460576.1_Intron|KBTBD8_ENST00000417314.2_Silent_p.G328G	NM_032505.2	NP_115894.2	Q8NFY9	KBTB8_HUMAN	kelch repeat and BTB (POZ) domain containing 8	328										breast(1)|endometrium(1)|kidney(4)|large_intestine(7)|lung(4)|ovary(2)|prostate(1)	20		Lung NSC(201;0.0765)		BRCA - Breast invasive adenocarcinoma(55;6.02e-06)|KIRC - Kidney renal clear cell carcinoma(39;0.105)|Kidney(39;0.125)		GAGAAGTTGGGATTCTTGTAT	0.433000													11	103					0.000978159	0.00111154	1	1	0
EHD2	30846	broad.mit.edu	37	19	48239781	48239781	+	Silent	SNP	G	G	A			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr19:48239781G>A	ENST00000263277.3	+	5	1322	c.1071G>A	c.(1069-1071)caG>caA	p.Q357Q	EHD2_ENST00000540884.1_3'UTR|EHD2_ENST00000538399.1_Silent_p.Q221Q	NM_014601.3	NP_055416.2	Q9NZN4	EHD2_HUMAN	EH-domain containing 2	357					blood coagulation|endocytic recycling	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding			endometrium(3)|large_intestine(7)|lung(2)|ovary(2)|prostate(1)|skin(1)|upper_aerodigestive_tract(3)	19		all_cancers(25;6.74e-07)|all_lung(116;2.02e-05)|Lung NSC(112;3.77e-05)|all_epithelial(76;4.89e-05)|all_neural(266;0.0332)|Ovarian(192;0.086)		OV - Ovarian serous cystadenocarcinoma(262;0.000336)|all cancers(93;0.000415)|Epithelial(262;0.0132)|GBM - Glioblastoma multiforme(486;0.0537)		CTGATTGCCAGAAAATGCAGG	0.532000													16	20					0	0	1	0	0
CROCCP3	0	broad.mit.edu	37	1	16812092	16812092	+	RNA	SNP	G	G	A	rs3895546	by1000genomes	TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr1:16812092G>A	ENST00000263511.4	-	0	1459					NR_023386.1																						AGTGAGGTCCGTGTTGACCTG	0.597000													11	7					0	0	1	0	0
PANX3	116337	broad.mit.edu	37	11	124489205	124489205	+	Silent	SNP	C	C	A			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr11:124489205C>A	ENST00000284288.2	+	4	620	c.553C>A	c.(553-555)Cga>Aga	p.R185R		NM_052959.2	NP_443191.1	Q96QZ0	PANX3_HUMAN	pannexin 3	185					protein hexamerization	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			NS(1)|central_nervous_system(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(3)|large_intestine(3)|lung(10)|prostate(2)|skin(2)|urinary_tract(1)	26	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0219)		TCGGAAAGAACGATACTTTGA	0.488000													21	28					3.5997e-14	4.49962e-14	1	1	0
MTR	4548	broad.mit.edu	37	1	237024423	237024423	+	Splice_Site	SNP	A	A	T			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr1:237024423A>T	ENST00000366577.5	+	20	2437		c.e20-1		MTR_ENST00000535889.1_Intron	NM_000254.2	NP_000245.2	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine methyltransferase						nervous system development|xenobiotic metabolic process	cytosol	cobalamin binding|homocysteine S-methyltransferase activity|methionine synthase activity|protein binding|zinc ion binding	p.?(1)		breast(4)|central_nervous_system(1)|cervix(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(8)|lung(30)|ovary(1)|pancreas(1)|prostate(2)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	67	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;2.79e-22)|all_epithelial(177;4.84e-14)|Breast(1374;0.00123)|Prostate(94;0.0181)|Lung SC(1967;0.0262)|Acute lymphoblastic leukemia(190;0.117)	OV - Ovarian serous cystadenocarcinoma(106;0.0106)	KIRC - Kidney renal clear cell carcinoma(1967;0.248)	Hydroxocobalamin(DB00200)|L-Methionine(DB00134)|Tetrahydrofolic acid(DB00116)	tgtcttttttAGGGCATTGAA	0.323000													6	17					0	0	1	0	0
PRX	57716	broad.mit.edu	37	19	40900182	40900182	+	Silent	SNP	C	C	T			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr19:40900182C>T	ENST00000324001.7	-	7	4347	c.4077G>A	c.(4075-4077)gaG>gaA	p.E1359E	PRX_ENST00000291825.7_3'UTR	NM_181882.2	NP_870998.2	Q9BXM0	PRAX_HUMAN	periaxin	1359	Poly-Glu.		Missing.		axon ensheathment	cytoplasm|nucleus|plasma membrane	protein binding			breast(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(7)|lung(12)|ovary(2)|prostate(3)|skin(1)|urinary_tract(9)	47			Lung(22;6.24e-05)|LUSC - Lung squamous cell carcinoma(20;0.000384)			TGCcctcttcctcctcctcct	0.697000													3	19					0	0	1	0	0
RBM17	84991	broad.mit.edu	37	10	6154185	6154185	+	Silent	SNP	G	G	A	rs148263630	byFrequency	TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr10:6154185G>A	ENST00000446108.1	+	8	1361	c.717G>A	c.(715-717)gcG>gcA	p.A239A	RBM17_ENST00000379888.4_Silent_p.A239A	NM_001145547.1	NP_001139019.1	Q96I25	SPF45_HUMAN	RNA binding motif protein 17	239	G-patch.				mRNA processing|RNA splicing	spliceosomal complex	nucleotide binding|protein binding|RNA binding			NS(1)|breast(3)|cervix(1)|endometrium(1)|kidney(4)|large_intestine(2)|lung(4)|prostate(1)|urinary_tract(2)	19						GCACGGTGGCGCACAAGATCA	0.557000													3	36					0	0	1	0	0
MLLT3	4300	broad.mit.edu	37	9	20414340	20414340	+	Silent	SNP	G	G	A			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr9:20414340G>A	ENST00000380338.4	-	5	790	c.504C>T	c.(502-504)agC>agT	p.S168S	MLLT3_ENST00000355930.6_5'UTR|MLLT3_ENST00000429426.2_Silent_p.S165S|MLLT3_ENST00000475957.1_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								4	44					0	0	1	0	0
FAF1	11124	broad.mit.edu	37	1	51121170	51121170	+	Missense_Mutation	SNP	T	T	C			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr1:51121170T>C	ENST00000396153.2	-	8	1139	c.688A>G	c.(688-690)Atc>Gtc	p.I230V	FAF1_ENST00000371778.4_Missense_Mutation_p.I230V	NM_007051.2	NP_008982.1	Q9UNN5	FAF1_HUMAN	Fas (TNFRSF6) associated factor 1	230					apoptosis|cytoplasmic sequestering of NF-kappaB|positive regulation of apoptosis|positive regulation of protein complex assembly|proteasomal ubiquitin-dependent protein catabolic process|regulation of protein catabolic process	CD95 death-inducing signaling complex|cytosol|perinuclear region of cytoplasm	heat shock protein binding|NF-kappaB binding|protein kinase binding|protein kinase regulator activity	p.0?(1)		breast(2)|kidney(3)|large_intestine(5)|lung(10)|ovary(1)|pancreas(2)|upper_aerodigestive_tract(1)	24				GBM - Glioblastoma multiforme(3;3.18e-11)|all cancers(3;0.00526)		CGAACGGGGATACTTGTAAGG	0.368000													25	5					0	0	1	0	0
MAP7D1	55700	broad.mit.edu	37	1	36643701	36643703	+	In_Frame_Del	DEL	AGA	AGA	-	rs3045695		TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr1:36643701_36643703delAGA	ENST00000316156.4	+	8	1949_1951	c.1496_1498delAGA	c.(1495-1500)gag>g	p.EK499del	MAP7D1_ENST00000373148.4_In_Frame_Del_p.EK82del|MAP7D1_ENST00000373150.4_In_Frame_Del_p.EK504del|MAP7D1_ENST00000373151.2_In_Frame_Del_p.EK536del			Q3KQU3	MA7D1_HUMAN	MAP7 domain containing 1	536	Pro-rich.					cytoplasm|spindle				breast(2)|cervix(1)|endometrium(2)|large_intestine(3)|lung(3)|ovary(3)|prostate(3)|skin(1)|urinary_tract(1)	19		Myeloproliferative disorder(586;0.0393)				GCCAGTAACGAGAAGGAGTCAGC	0.719													5	2	---	---	---	---					
RP11-296A18.3	0	broad.mit.edu	37	1	51662882	51662882	+	RNA	DEL	A	A	-			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr1:51662882delA	ENST00000366181.2	-	0	250																		p.0?(2)									aaataaaaataaaaaaaaaTT	0.502													2	4	---	---	---	---					
CSDE1	7812	broad.mit.edu	37	1	115272911	115272912	+	Frame_Shift_Ins	INS	-	-	C			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr1:115272911_115272912insC	ENST00000438362.2	-	12	1839_1840	c.1461_1462insG	c.(1459-1464)ccaaacfs	p.N488fs	CSDE1_ENST00000339438.6_Frame_Shift_Ins_p.N411fs|CSDE1_ENST00000261443.5_Frame_Shift_Ins_p.N411fs|CSDE1_ENST00000358528.4_Frame_Shift_Ins_p.N442fs|CSDE1_ENST00000534699.1_Frame_Shift_Ins_p.N442fs|CSDE1_ENST00000530886.1_Frame_Shift_Ins_p.N312fs|CSDE1_ENST00000369530.1_Frame_Shift_Ins_p.N457fs	NM_001242891.1	NP_001229820.1	O75534	CSDE1_HUMAN	cold shock domain containing E1, RNA-binding	442	CSD 6.				male gonad development|regulation of transcription, DNA-dependent	cytoplasm	DNA binding|protein binding|RNA binding			NS(1)|breast(4)|endometrium(11)|kidney(2)|large_intestine(12)|lung(17)|ovary(2)|skin(1)|upper_aerodigestive_tract(1)	51	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;2.21e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		CTAGTGGTTTTAGGATTGGAAA	0.381													36	8	---	---	---	---					
SPEG	10290	broad.mit.edu	37	2	220348359	220348359	+	Frame_Shift_Del	DEL	G	G	-			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr2:220348359delG	ENST00000312358.7	+	30	6306	c.6174delG	c.(6172-6174)ctfs	p.L2058fs	SPEG_ENST00000485813.1_3'UTR|AC053503.11_ENST00000429882.1_RNA	NM_005876.4	NP_005867.3	Q15772	SPEG_HUMAN	SPEG complex locus	2058					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity			breast(2)|central_nervous_system(3)|endometrium(10)|kidney(2)|large_intestine(9)|lung(42)|ovary(5)|pancreas(1)|prostate(8)|skin(1)|stomach(9)|upper_aerodigestive_tract(4)|urinary_tract(4)	100		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GGGGAGGCCTGGGTGAGGGCG	0.776													2	4	---	---	---	---					
RP11-3B12.1	0	broad.mit.edu	37	7	124675408	124675408	+	RNA	DEL	G	G	-			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr7:124675408delG	ENST00000453342.1	+	0	614																											TCAGGGAGACGGGGGTCATTa	0.488													2	4	---	---	---	---					
MUC2	4583	broad.mit.edu	37	11	1090951	1090951	+	Frame_Shift_Del	DEL	T	T	-	rs72655327		TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr11:1090951delT	ENST00000441003.2	+	28	3873	c.3846delT	c.(3844-3846)acfs	p.T1288fs	MUC2_ENST00000359061.5_Frame_Shift_Del_p.T1289fs	NM_002457.2	NP_002448.2	Q02817	MUC2_HUMAN	mucin 2, oligomeric mucus/gel-forming	1288						inner mucus layer|outer mucus layer	protein binding			NS(3)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(26)|haematopoietic_and_lymphoid_tissue(4)|kidney(11)|large_intestine(5)|lung(22)|ovary(2)|prostate(16)|skin(5)|stomach(1)|upper_aerodigestive_tract(2)	102		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	ccttcaccactaccaccacca	0.617													2	4	---	---	---	---					
MESP2	145873	broad.mit.edu	37	15	90320121	90320144	+	In_Frame_Del	DEL	AGGGGCAGGGGCAAGGGCAGGGGC	AGGGGCAGGGGCAAGGGCAGGGGC	-	rs56192595		TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr15:90320121_90320144delAGGGGCAGGGGCAAGGGCAGGGGC	ENST00000341735.3	+	1	533_556	c.533_556delAGGGGCAGGGGCAAGGGCAGGGGC	c.(532-558)gag>g	p.EGQGQGQGQ178del	MESP2_ENST00000558723.1_Intron|MESP2_ENST00000560219.1_Intron	NM_001039958.1	NP_001035047.1	Q0VG99	MESP2_HUMAN	mesoderm posterior 2 homolog (mouse)	178					Notch signaling pathway	nucleus	DNA binding	p.Q198_G205delQGQGQGQG(1)		kidney(1)|large_intestine(2)|lung(1)|skin(1)|upper_aerodigestive_tract(1)	6	Lung NSC(78;0.0221)|all_lung(78;0.0448)		BRCA - Breast invasive adenocarcinoma(143;0.0146)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)			ACGCaggcggaggggcaggggcaagggcaggggcaggggcaggg	0.777													6	2	---	---	---	---					
UBALD1	124402	broad.mit.edu	37	16	4660590	4660591	+	Frame_Shift_Ins	INS	-	-	C			TCGA-WB-A81M-01A-11D-A35I-08	TCGA-WB-A81M-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	befe16ec-3f43-439f-83f8-026df4c06e29	da047bf6-64c5-4fbd-aa9e-7f963c8ee970	g.chr16:4660590_4660591insC	ENST00000590965.1	-	2	263_264	c.187_188insG	c.(187-189)ctgfs	p.L63fs	UBALD1_ENST00000283474.7_Intron|UBALD1_ENST00000591897.1_Intron|UBALD1_ENST00000587615.1_Intron|UBALD1_ENST00000591401.1_Intron|UBALD1_ENST00000587649.1_Intron|UBALD1_ENST00000590891.1_5'UTR					UBA-like domain containing 1																		CACCCTCCAGGCCCCCGCCGGC	0.649													2	4	---	---	---	---					
