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_status	validation_method	validation_tumor_sample	validation_alt_allele	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
Unknown	0	broad.mit.edu	37	1	148882025	148882025	+	RNA	SNP	C	T	T	rs150449871	by1000genomes	TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr1:148882025C>T	uc009wkv.1	+	3		c.246C>T								Homo sapiens cDNA, FLJ17483.																		TGTTTTCTAGCAGTGACAAAT	0.343000													6	87	---	---	---	---	0	0	0.021553	0	0
C4BPA	722	broad.mit.edu	37	1	207317265	207317265	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr1:207317265G>A	uc001hfo.2	+	11	1741	c.1547G>A	c.(1546-1548)GGT>GAT	p.G516D		NM_000715	NP_000706	P04003	C4BPA_HUMAN	complement component 4 binding protein, alpha	516	Sushi 8.				complement activation, classical pathway|innate immune response	extracellular region	protein binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						TCTGGCTATGGTGTGGTTGGT	0.473000													19	88	---	---	---	---	0	0	0.049695	0	0
CCDC15	80071	broad.mit.edu	37	11	124857562	124857562	+	Silent	SNP	A	G	G			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr11:124857562A>G	uc001qbm.3	+	8	1699	c.1440A>G	c.(1438-1440)TTA>TTG	p.L480L		NM_025004	NP_079280	Q0P6D6	CCD15_HUMAN	coiled-coil domain containing 15	480						centrosome				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.215)	Breast(109;0.00222)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.68e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0413)		AGAATTTTTTATCTAGAGACC	0.408000													4	124	---	---	---	---	0	0	0.014758	0	0
PRB2	653247	broad.mit.edu	37	12	11546247	11546247	+	Silent	SNP	A	G	G			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr12:11546247A>G	uc010shk.1	-	3	800	c.765T>C	c.(763-765)GGT>GGC	p.G255G		NM_006248	NP_006239			proline-rich protein BstNI subfamily 2												0		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)			GAGGTGGGGGACCTTGGGGCT	0.612000													5	174	---	---	---	---	0	0	0.020292	0	0
RPL13AP20	387841	broad.mit.edu	37	12	13028751	13028751	+	Missense_Mutation	SNP	G	C	C			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr12:13028751G>C	uc010sho.1	+	1	341	c.319G>C	c.(319-321)GGC>CGC	p.G107R		NR_003932				SubName: Full=Ribosomal protein L13a variant; Flags: Fragment;												0						GGTGTTTGACGGCATCCCACC	0.612000													4	23	---	---	---	---	0	0	0.014758	0	0
LRRC43	254050	broad.mit.edu	37	12	122687921	122687921	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr12:122687921G>A	uc009zxm.2	+	12	1928	c.1903G>A	c.(1903-1905)GTA>ATA	p.V635I	LRRC43_uc001ubw.3_Missense_Mutation_p.V450I|LRRC43_uc009zxn.2_Missense_Mutation_p.V396I|B3GNT4_uc001ubx.2_5'Flank|B3GNT4_uc001uby.2_5'Flank	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	635											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		GCCCCTGACCGTAGAGGTGCA	0.592000													4	98	---	---	---	---	0	0	0.014758	0	0
ZIC2	7546	broad.mit.edu	37	13	100637890	100637890	+	Missense_Mutation	SNP	G	T	T			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr13:100637890G>T	uc001von.2	+	3	1553	c.1553G>T	c.(1552-1554)GGG>GTG	p.G518V		NM_007129	NP_009060	O95409	ZIC2_HUMAN	zinc finger protein of the cerebellum 2	518					brain development|negative regulation of transcription, DNA-dependent|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription, DNA-dependent|visual perception	cytoplasm|nucleus	chromatin DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					ggGACAGCCGGGGGTCACAGC	0.363000													9	23	---	---	---	---	2.17888e-05	2.46002e-05	0.058154	1	0
MAP1A	4130	broad.mit.edu	37	15	43816894	43816894	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr15:43816894G>A	uc001zrt.2	+	4	3690	c.3223G>A	c.(3223-3225)GCA>ACA	p.A1075T		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1075						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	GGCCCAGGAAGCACCTGTCAA	0.532000													3	120	---	---	---	---	0	0	0.004672	0	0
C15orf42	90381	broad.mit.edu	37	15	90129030	90129030	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr15:90129030G>A	uc002boe.2	+	4	1268	c.1268G>A	c.(1267-1269)CGC>CAC	p.R423H		NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	423					cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			ACTGTGTGCCGCACCAAGGAG	0.542000													3	105	---	---	---	---	0	0	0.004672	0	0
LOC283922	283922	broad.mit.edu	37	16	74372644	74372644	+	Silent	SNP	A	G	G			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr16:74372644A>G	uc002fcr.2	-	9	1661	c.315T>C	c.(313-315)CCT>CCC	p.P105P	LOC283922_uc010vms.1_RNA					Homo sapiens cDNA FLJ39449 fis, clone PROST2008360, highly similar to Homo sapiens pyruvate dehydrogenase phosphatase regulatory subunit (PDPR), mRNA.												0						TACCCTTGTCAGGGGGAACAA	0.443000													3	48	---	---	---	---	0	0	0.009096	0	0
Unknown	0	broad.mit.edu	37	17	21731270	21731270	+	Missense_Mutation	SNP	T	C	C			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr17:21731270T>C	uc002gyy.3	+	2	697	c.572T>C	c.(571-573)ATC>ACC	p.I191T						SubName: Full=cDNA FLJ51326, highly similar to Homo sapiens ubiquitin B (UBB), mRNA;																		ATCCCCCCGATCAGCAGAGGC	0.547000													3	78	---	---	---	---	0	0	0.009096	0	0
C17orf28	283987	broad.mit.edu	37	17	72951961	72951961	+	Missense_Mutation	SNP	G	C	C			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr17:72951961G>C	uc002jmj.3	-	13	1711	c.1562C>G	c.(1561-1563)TCT>TGT	p.S521C	C17orf28_uc002jmi.2_5'Flank|C17orf28_uc010wrs.1_Missense_Mutation_p.S320C	NM_030630	NP_085133	Q8IV36	CQ028_HUMAN	hypothetical protein LOC283987	521						integral to membrane|plasma membrane	protein binding				0	all_lung(278;0.151)|Lung NSC(278;0.185)					CTGGGCGGCAGAGAAGAGGAA	0.572000													37	86	---	---	---	---	0	0	0.092188	0	0
UPF1	5976	broad.mit.edu	37	19	18960960	18960960	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr19:18960960G>A	uc002nkg.2	+	4	813	c.538G>A	c.(538-540)GTC>ATC	p.V180I	UPF1_uc002nkf.2_Missense_Mutation_p.V180I	NM_002911	NP_002902	Q92900	RENT1_HUMAN	regulator of nonsense transcripts 1	180	Sufficient for interaction with RENT2.				cell cycle|DNA repair|DNA replication|histone mRNA catabolic process|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translational termination	chromatin|cytoplasmic mRNA processing body|exon-exon junction complex	ATP binding|ATP-dependent RNA helicase activity|chromatin binding|DNA binding|protein binding|protein binding|RNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2						GGGGGAGACAGTCCTGGAGTG	0.562000													3	126	---	---	---	---	0	0	0.009096	0	0
TGM6	343641	broad.mit.edu	37	20	2380227	2380227	+	Silent	SNP	A	T	T			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr20:2380227A>T	uc002wfy.1	+	6	754	c.693A>T	c.(691-693)CGA>CGT	p.R231R	TGM6_uc010gal.1_Silent_p.R231R	NM_198994	NP_945345	O95932	TGM3L_HUMAN	transglutaminase 6	231					cell death|peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(3)|skin(1)	4					L-Glutamine(DB00130)	ACAACGACCGAGGTGTGGTGC	0.632000													33	115	---	---	---	---	0	0	0.092188	0	0
KRTAP6-2	337967	broad.mit.edu	37	21	31971024	31971024	+	Missense_Mutation	SNP	C	G	G			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr21:31971024C>G	uc011adc.1	-	1	170	c.170G>C	c.(169-171)GGC>GCC	p.G57A	KRTAP22-1_uc011add.1_5'Flank	NM_181604	NP_853635	Q3LI66	KRA62_HUMAN	keratin associated protein 6-2	57						intermediate filament					0						GTAGCCAGAGCCGCATCCATA	0.567000													16	43	---	---	---	---	0	0	0.033300	0	0
TOP3B	8940	broad.mit.edu	37	22	22318659	22318659	+	Silent	SNP	C	A	A			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr22:22318659C>A	uc002zvs.2	-	10	1407	c.972G>T	c.(970-972)ACG>ACT	p.T324T	TOP3B_uc010gtm.1_5'UTR|TOP3B_uc002zvr.2_Silent_p.T49T|TOP3B_uc010gtl.2_Silent_p.T324T|TOP3B_uc002zvt.3_Silent_p.T324T	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta	324					DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		GCCGCTCAGCCGTCTGCATGG	0.637000													3	110	---	---	---	---	0.00909568	0.0099484	0.009096	1	0
TRANK1	9881	broad.mit.edu	37	3	36873948	36873948	+	Missense_Mutation	SNP	T	C	C			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr3:36873948T>C	uc003cgj.2	-	12	5646	c.5344A>G	c.(5344-5346)AGA>GGA	p.R1782G		NM_014831	NP_055646	O15050	TRNK1_HUMAN	lupus brain antigen 1	2332					DNA repair		ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(1)|central_nervous_system(1)	2						CTGCTGCCTCTCCCCCTGCCC	0.507000													3	109	---	---	---	---	0	0	0.009096	0	0
SMARCA5	8467	broad.mit.edu	37	4	144467147	144467147	+	Missense_Mutation	SNP	G	C	C			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr4:144467147G>C	uc003ijg.2	+	19	2929	c.2467G>C	c.(2467-2469)GCT>CCT	p.A823P		NM_003601	NP_003592	O60264	SMCA5_HUMAN	SWI/SNF-related matrix-associated	823					CenH3-containing nucleosome assembly at centromere|nucleosome positioning|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	condensed chromosome|nucleolus|nucleoplasm|NURF complex|RSF complex	ATP binding|ATPase activity|DNA binding|helicase activity|nucleosome binding|protein binding			skin(1)	1	all_hematologic(180;0.158)					AATTGATGAAGCTGAATCCCT	0.358000													29	44	---	---	---	---	0	0	0.041601	0	0
FAT2	2196	broad.mit.edu	37	5	150932824	150932824	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr5:150932824G>A	uc003lue.3	-	5	4083	c.4070C>T	c.(4069-4071)ACG>ATG	p.T1357M	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1357	Extracellular (Potential).|Cadherin 12.				epithelial cell migration|homophilic cell adhesion	cell-cell adherens junction|integral to membrane|nucleus	calcium ion binding			ovary(4)|upper_aerodigestive_tract(1)|skin(1)	6		Medulloblastoma(196;0.0912)|all_hematologic(541;0.104)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTCCATGACCGTAAAGCTGTA	0.587000													3	118	---	---	---	---	0	0	0.004672	0	0
MANEA	79694	broad.mit.edu	37	6	96034277	96034277	+	Splice_Site	SNP	G	A	A			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr6:96034277G>A	uc003poo.1	+	2	103	c.-37_splice	c.e2-1		MANEA_uc003pon.2_Splice_Site	NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha						post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		ATAAATTGCAGCAAAACACTT	0.274000													3	73	---	---	---	---	0	0	0.004672	0	0
FOXP2	93986	broad.mit.edu	37	7	114270018	114270018	+	Silent	SNP	G	A	A			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr7:114270018G>A	uc003vhb.2	+	5	929	c.555G>A	c.(553-555)CAG>CAA	p.Q185Q	FOXP2_uc003vgu.2_RNA|FOXP2_uc003vgz.2_Silent_p.Q210Q|FOXP2_uc003vha.2_Silent_p.Q93Q|FOXP2_uc011kmu.1_Silent_p.Q202Q|FOXP2_uc011kmv.1_Silent_p.Q185Q|FOXP2_uc010ljz.1_Silent_p.Q93Q|FOXP2_uc003vgt.1_RNA|FOXP2_uc003vgv.1_Silent_p.Q185Q|FOXP2_uc003vgx.2_Silent_p.Q185Q|FOXP2_uc003vhd.2_Silent_p.Q185Q|FOXP2_uc003vhc.2_Silent_p.Q210Q	NM_014491	NP_055306	O15409	FOXP2_HUMAN	forkhead box P2 isoform I	185	Gln-rich.				camera-type eye development|caudate nucleus development|cerebellum development|cerebral cortex development|embryo development|growth|lung alveolus development|negative regulation of transcription, DNA-dependent|pattern specification process|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of mesenchymal cell proliferation|post-embryonic development|putamen development|regulation of sequence-specific DNA binding transcription factor activity|righting reflex|skeletal muscle tissue development|smooth muscle tissue development|vocal learning	cytoplasm|transcription factor complex	chromatin binding|DNA bending activity|double-stranded DNA binding|promoter binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|breast(1)|skin(1)	8						agcagcaacagcagcagcagc	0.174000													4	56	---	---	---	---	0	0	0.009096	0	0
IL33	90865	broad.mit.edu	37	9	6251164	6251164	+	Missense_Mutation	SNP	T	C	C			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr9:6251164T>C	uc003zjt.2	+	4	299	c.242T>C	c.(241-243)GTA>GCA	p.V81A	IL33_uc011lmg.1_Missense_Mutation_p.V81A|IL33_uc011lmh.1_Intron|IL33_uc003zju.1_Missense_Mutation_p.V81A	NM_033439	NP_254274	O95760	IL33_HUMAN	interleukin 33 precursor	81					positive regulation of chemokine secretion|positive regulation of inflammatory response|positive regulation of macrophage activation|positive regulation of transcription from RNA polymerase II promoter	extracellular space	cytokine activity				0		Acute lymphoblastic leukemia(23;0.158)|Prostate(43;0.167)		GBM - Glioblastoma multiforme(50;0.0161)|Lung(218;0.105)		AGACATCTGGTACTCGCTGCC	0.468000													3	66	---	---	---	---	0	0	0.004672	0	0
FAM129B	64855	broad.mit.edu	37	9	130270798	130270798	+	Missense_Mutation	SNP	T	C	C			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr9:130270798T>C	uc004brh.2	-	11	1539	c.1337A>G	c.(1336-1338)TAT>TGT	p.Y446C	FAM129B_uc004bri.2_Missense_Mutation_p.Y433C|FAM129B_uc004brj.3_Missense_Mutation_p.Y446C	NM_022833	NP_073744	Q96TA1	NIBL1_HUMAN	hypothetical protein LOC64855 isoform 1	446							protein binding				0						CTCGAACGTATACACGGCATT	0.637000													13	222	---	---	---	---	0	0	0.028581	0	0
PHEX	5251	broad.mit.edu	37	X	22108574	22108574	+	Missense_Mutation	SNP	G	A	A			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chrX:22108574G>A	uc004dah.2	+	6	894	c.691G>A	c.(691-693)GTG>ATG	p.V231M	PHEX_uc011mjr.1_Missense_Mutation_p.V231M|PHEX_uc011mjs.1_Missense_Mutation_p.V134M	NM_000444	NP_000435	P78562	PHEX_HUMAN	phosphate-regulating neutral endopeptidase	231	Extracellular (Potential).				biomineral tissue development|cell-cell signaling|protein modification process|proteolysis|skeletal system development	integral to plasma membrane	aminopeptidase activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3						CTCCCTGGCCGTGAGGGAAGA	0.428000													3	107	---	---	---	---	0	0	0.014758	0	0
ILDR2	387597	broad.mit.edu	37	1	166889963	166889963	+	Frame_Shift_Del	DEL	T	-	-			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr1:166889963delT	uc001gdx.1	-	9	1921	c.1865delA	c.(1864-1866)AAGfs	p.K622fs		NM_199351	NP_955383	Q71H61	ILDR2_HUMAN	immunoglobulin-like domain containing receptor	622	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1						GGCGGGCTCCTTTTTCCTCTT	0.682													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	10	27620447	27620448	+	IGR	INS	-	TT	TT	rs142562667	by1000genomes	TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr10:27620447_27620448insTT								LOC387646 (79212 upstream) : PTCHD3 (66669 downstream)																							ACTCAGGCTTCTTTCCGCCAAG	0.465													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	10	102941297	102941297	+	IGR	DEL	A	-	-			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr10:102941297delA								TLX1 (43752 upstream) : LBX1 (45437 downstream)																							TTATGTAAGCAAAATGTGTGG	0.199													2	4	---	---	---	---					
R3HDM2	22864	broad.mit.edu	37	12	57674205	57674207	+	In_Frame_Del	DEL	TGC	-	-			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr12:57674205_57674207delTGC	uc009zpm.1	-	12	1271_1273	c.1236_1238delGCA	c.(1234-1239)CAGCAA>CAA	p.412_413QQ>Q	R3HDM2_uc010srn.1_RNA|R3HDM2_uc001snu.2_In_Frame_Del_p.73_74QQ>Q|R3HDM2_uc001snr.2_In_Frame_Del_p.139_140QQ>Q|R3HDM2_uc001sns.2_In_Frame_Del_p.412_413QQ>Q|R3HDM2_uc001snt.2_In_Frame_Del_p.426_427QQ>Q|R3HDM2_uc009zpn.1_In_Frame_Del_p.35_36QQ>Q	NM_014925	NP_055740	Q9Y2K5	R3HD2_HUMAN	R3H domain containing 2	412_413	Gln-rich.					nucleus	nucleic acid binding			ovary(2)	2						AGCAGGAAGTtgctgctgctgct	0.488													7	158	---	---	---	---					
Unknown	0	broad.mit.edu	37	17	18988562	18988562	+	IGR	DEL	T	-	-			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr17:18988562delT								GRAP (38226 upstream) : GRAPL (42220 downstream)																							CTGATGTGTGTTTTTTTTTTT	0.279													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	18	11610674	11610674	+	IGR	DEL	C	-	-			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr18:11610674delC								FAM38B (908695 upstream) : GNAL (78462 downstream)																							AGACTGAAGACaaaaaaaaaa	0.303													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	21	44756289	44756291	+	IGR	DEL	CAC	-	-			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr21:44756289_44756291delCAC								CRYAA (163376 upstream) : SIK1 (78107 downstream)																							ccaccaccatcaccaccaccaac	0.000													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	22	32435952	32435953	+	IGR	DEL	AG	-	-	rs144389889		TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr22:32435952_32435953delAG								YWHAH (82363 upstream) : SLC5A1 (3084 downstream)																							aaaaaaaaaaagggaaagaaga	0.287													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	3	196281024	196281024	+	IGR	DEL	T	-	-			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr3:196281024delT								C3orf43 (38787 upstream) : WDR53 (37 downstream)																							AACCAGGAGCTTTTTTTTTTA	0.254													3	5	---	---	---	---					
Unknown	0	broad.mit.edu	37	5	51503050	51503051	+	IGR	DEL	AG	-	-			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr5:51503050_51503051delAG								ISL1 (812493 upstream) : ITGA1 (580723 downstream)																							agagacagacagagagagagaC	0.322													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	6	106620627	106620628	+	IGR	DEL	AG	-	-			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr6:106620627_106620628delAG								PRDM1 (62813 upstream) : ATG5 (11726 downstream)																							GCagagagacagagagagagag	0.347													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	6	169392375	169392376	+	IGR	INS	-	C	C			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr6:169392375_169392376insC								SMOC2 (323704 upstream) : THBS2 (223500 downstream)																							gtgcctctgcaccccatgtgcc	0.158													3	3	---	---	---	---					
SFTPC	6440	broad.mit.edu	37	8	22020159	22020161	+	In_Frame_Del	DEL	GTG	-	-			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr8:22020159_22020161delGTG	uc003xax.3	+	2	273_275	c.115_117delGTG	c.(115-117)GTGdel	p.V44del	SFTPC_uc003xaw.3_In_Frame_Del_p.V93del|SFTPC_uc011kza.1_In_Frame_Del_p.V44del|SFTPC_uc003xaz.2_In_Frame_Del_p.V44del|SFTPC_uc003xay.3_In_Frame_Del_p.V44del|BMP1_uc011kzb.1_5'Flank|BMP1_uc003xba.2_5'Flank|BMP1_uc003xbb.2_5'Flank|BMP1_uc003xbe.2_5'Flank|BMP1_uc003xbc.2_5'Flank|BMP1_uc003xbd.2_5'Flank|BMP1_uc003xbf.2_5'Flank|BMP1_uc003xbg.2_5'Flank|BMP1_uc011kzc.1_5'Flank|BMP1_uc003xbh.2_5'Flank|BMP1_uc003xbi.2_5'Flank	NM_003018	NP_003009	P11686	PSPC_HUMAN	surfactant protein C precursor	44					respiratory gaseous exchange	extracellular space					0				Colorectal(74;0.00191)|COAD - Colon adenocarcinoma(73;0.0615)|READ - Rectum adenocarcinoma(644;0.1)		CCTTCTTATCGTGGTGGTGGTGG	0.601													8	201	---	---	---	---					
Unknown	0	broad.mit.edu	37	8	112239271	112239271	+	IGR	DEL	T	-	-			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr8:112239271delT								None (None upstream) : CSMD3 (995890 downstream)																							CTAATGAATATTGTCCGTAAC	0.363													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	8	128098496	128098496	+	IGR	DEL	A	-	-			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr8:128098496delA								FAM84B (528030 upstream) : LOC727677 (203566 downstream)																							CCTAATTCTTAAAAAAAAAAG	0.353													3	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	9	99257674	99257674	+	IGR	DEL	C	-	-			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chr9:99257674delC								HABP4 (4057 upstream) : CDC14B (4723 downstream)																							ATGTGTGCTgcccccccccgc	0.363													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	X	6451611	6451614	+	IGR	DEL	CCCT	-	-			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chrX:6451611_6451614delCCCT								NLGN4X (304905 upstream) : VCX3A (46 downstream)																							acctcttcccccctccctccctcc	0.181													2	4	---	---	---	---					
ARMCX3	51566	broad.mit.edu	37	X	100880152	100880154	+	In_Frame_Del	DEL	TGA	-	-			TCGA-DJ-A3US-01A-11D-A22D-08	TCGA-DJ-A3US-10A-01D-A22D-08									Somatic	Phase_I	Capture				Illumina GAIIx	ad874249-9964-4e48-aa3f-7e828ea28f3f	23aa8b80-6356-479f-beae-d06aa7d895dc	g.chrX:100880152_100880154delTGA	uc004ehz.1	+	5	716_718	c.183_185delTGA	c.(181-186)TCTGAT>TCT	p.D66del	ARMCX3_uc004eia.1_In_Frame_Del_p.D66del|ARMCX3_uc004eib.1_In_Frame_Del_p.D66del|ARMCX3_uc004eic.1_In_Frame_Del_p.D66del	NM_016607	NP_057691	Q9UH62	ARMX3_HUMAN	armadillo repeat containing, X-linked 3	66						integral to membrane	binding			ovary(1)|lung(1)	2						ATGACTGGTCTGATGATGATGAT	0.448													7	371	---	---	---	---					
