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	TTotCov	TVarCov	NTotCov	NVarCov	TVarRat	NVarRat	dbSNP_AF	dbSNP_PopFreq	dbSNP_Strength	COSMIC_Codon	COSMIC_Gene	COSMIC_Gene_Freq	COSMIC_Site_Freq	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	Confidence	Algorithm
SUPT20HL1	100130302	hgsc.bcm.edu	37	X	24382373	24382374	+	In_Frame_Ins	INS	-	-	TGCTGC	rs371342199	alternate_allele	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	206.0	37.0	261.0	0.0	0.179612	0	.	.	alt	.	.	.	.	NM_001136234	exon1	c.1496_1497insTGCTGC	p.I499delinsIAA	.	.	PASS	Atlas-Indel
SETD1B	23067	hgsc.bcm.edu	37	12	122248312	122248312	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	80.0	35.0	56.0	0.0	0.4375	0	.	.	none	.	SETD1B	105	.	NM_015048	exon5	c.1460delC	p.S487fs	.	.	PASS	Atlas-Indel
WDR13	64743	hgsc.bcm.edu	37	X	48462764	48462765	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	45.0	25.0	121.0	0.0	0.556	.	.	.	none	.	WDR13	96	.	NM_017883	exon8	c.1259_1260insG	p.Q420fs	.	.	PASS	Pindel,Atlas-Indel
SPAG17	200162	hgsc.bcm.edu	37	1	118567949	118567949	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	90.0	44.0	56.0	0.0	0.488889	0	.	.	none	.	SPAG17	263	.	NM_206996	exon27	c.C3821T	p.T1274M	ATCACCGTTTTAT	.	PASS	Atlas-SNP
BCL3	602	hgsc.bcm.edu	37	19	45261657	45261657	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	82.0	41.0	85.0	0.0	0.5	0	.	.	none	.	BCL3	28	.	NM_005178	exon7	c.C1046T	p.A349V	TGGTGGCGCGCAG	.	PASS	Atlas-SNP
OR2H1	26716	hgsc.bcm.edu	37	6	29429915	29429915	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	111.0	6.0	88.0	0.0	0.0540541	0	.	.	none	.	OR2H1	38	.	NM_030883	exon3	c.T369C	p.A123A	CGTGGCTGTCTGC	.	PASS	Atlas-SNP
PLXNB2	23654	hgsc.bcm.edu	37	22	50714348	50714348	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	126.0	38.0	138.0	0.0	0.301587	0	.	.	none	.	PLXNB2	172	.	NM_012401	exon36	c.C5382T	p.L1794L	TTGGTAGAGCTGG	.	PASS	Atlas-SNP
TWISTNB	221830	hgsc.bcm.edu	37	7	19738329	19738329	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	49.0	24.0	48.0	0.0	0.489796	0	.	.	none	.	TWISTNB	63	.	NM_001002926	exon4	c.A627G	p.E209E	AGAAACTTCAGAG	.	PASS	Atlas-SNP
LIPM	340654	hgsc.bcm.edu	37	10	90574359	90574359	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	62.0	18.0	61.0	0.0	0.290323	0	.	.	none	.	LIPM	17	.	NM_001128215	exon4	c.G537T	p.K179N	GGAAAAGATCTAT	.	PASS	Atlas-SNP
ERBB2IP	55914	hgsc.bcm.edu	37	5	65349497	65349497	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	59.0	32.0	48.0	0.0	0.542373	0	.	.	none	ERBB2IP,medulla,primitive_neuroectodermal_tumour-medulloblastoma,0,1	ERBB2IP	120	1	NM_001253699	exon21	c.C2351A	p.S784X	AAAGATCAAAAAC	.	PASS	Atlas-SNP
EXOC3L1	283849	hgsc.bcm.edu	37	16	67220777	67220777	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	28.0	25.0	35.0	0.0	0.892857	0	.	.	none	.	EXOC3L1	52	.	NM_178516	exon7	c.C1169T	p.S390F	CACTGAGACACAC	.	PASS	Atlas-SNP
DSCAML1	57453	hgsc.bcm.edu	37	11	117374656	117374656	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	134.0	65.0	112.0	0.0	0.485075	0	.	.	none	DSCAML1,NS,carcinoma,+1,1	DSCAML1	286	1	NM_020693	exon11	c.C2443T	p.R815C	CGTGGCGGATCAG	.	PASS	Atlas-SNP
KRTAP5-4	387267	hgsc.bcm.edu	37	11	1643255	1643255	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	165.0	8.0	124.0	2.0	0.0484848	0.016129	.	.	none	KRTAP5-4,NS,carcinoma,0,1	KRTAP5-4	78	1	NM_001012709	exon1	c.C69T	p.G23G	GCCACAGCCCCCA	.	scavenged	Atlas-SNP
OTOP2	92736	hgsc.bcm.edu	37	17	72923357	72923357	+	Missense_Mutation	SNP	G	G	A	rs374632139		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	185.0	89.0	186.0	0.0	0.481081	0	.	.	weak	OTOP2,NS,carcinoma,0,1	OTOP2	81	1	NM_178160	exon4	c.G490A	p.V164I	GTTCACGTCCACC	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230371	23230371	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	63.0	49.0	131.0	0.0	0.777778	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.A138T	p.Q46H	ACCGCAAAGCGGG	.	PASS	Atlas-SNP
CSK	1445	hgsc.bcm.edu	37	15	75090639	75090639	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	78.0	35.0	64.0	0.0	0.448718	0	.	.	none	.	CSK	43	.	NM_001127190	exon3	c.A1T	p.M1L	GAGAAGATGTCAG	.	PASS	Atlas-SNP
C16orf58	64755	hgsc.bcm.edu	37	16	31510677	31510677	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	175.0	9.0	156.0	0.0	0.0514286	0	.	.	none	.	C16orf58	28	.	NM_022744	exon5	c.T546C	p.S182S	TACAGGAGCCATA	.	PASS	Atlas-SNP
DYNC1H1	1778	hgsc.bcm.edu	37	14	102476412	102476412	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	53.0	4.0	38.0	0.0	0.0754717	0	.	.	none	.	DYNC1H1	395	.	NM_001376	exon30	c.C6210T	p.V2070V	AATCGTCCCGTTT	.	PASS	Atlas-SNP
ADGB	79747	hgsc.bcm.edu	37	6	147103217	147103217	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	93.0	4.0	102.0	0.0	0.0430108	0	.	.	none	.	ADGB	93	.	NM_024694	exon30	c.T3924C	p.S1308S	TATTAGTGAGGGA	.	PASS	Atlas-SNP
LURAP1L	286343	hgsc.bcm.edu	37	9	12775861	12775861	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	15.0	5.0	12.0	2.0	0.333333	0.166667	.	.	none	C9orf150,NS,carcinoma,0,1	.	.	1	NM_203403	exon1	c.T147C	p.G49G	TGGTGGTGGCGGC	.	scavenged	Atlas-SNP
FAM47A	158724	hgsc.bcm.edu	37	X	34148961	34148961	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	84.0	67.0	92.0	0.0	0.797619	0	.	.	none	.	FAM47A	249	.	NM_203408	exon1	c.C1435T	p.H479Y	CCGGGTGGGGATG	.	PASS	Atlas-SNP
GALNT16	57452	hgsc.bcm.edu	37	14	69727023	69727023	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	72.0	4.0	76.0	0.0	0.0555556	0	.	.	none	.	GALNT16	8	.	NM_001168368	exon1	c.G16A	p.A6T	ATCCGCGCCAATG	.	PASS	Atlas-SNP
KIAA1377	57562	hgsc.bcm.edu	37	11	101834522	101834522	+	Missense_Mutation	SNP	C	C	T	rs370774279		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	134.0	65.0	133.0	0.0	0.485075	0	.	.	weak	KIAA1377,NS,carcinoma,-1,2	KIAA1377	111	2	NM_020802	exon6	c.C2756T	p.P919L	GTTATCCGTCTGT	.	PASS	Atlas-SNP
NHSL1	57224	hgsc.bcm.edu	37	6	138745866	138745866	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	85.0	37.0	79.0	0.0	0.435294	0	.	.	none	.	NHSL1	99	.	NM_020464	exon7	c.C4185T	p.G1395G	GGCAGCGCCGGTG	.	PASS	Atlas-SNP
PRKG2	5593	hgsc.bcm.edu	37	4	82092909	82092909	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	77.0	5.0	78.0	0.0	0.0649351	0	.	.	none	.	PRKG2	195	.	NM_006259	exon3	c.T678C	p.P226P	CCACATAGGGATG	.	PASS	Atlas-SNP
ABLIM2	84448	hgsc.bcm.edu	37	4	8089920	8089920	+	Missense_Mutation	SNP	C	C	T	rs371815593		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	394.0	190.0	399.0	0.0	0.482233	0	.	.	weak	.	ABLIM2	59	.	NM_001130083	exon4	c.G430A	p.A144T	GGTGCGCGCTGCT	.	PASS	Atlas-SNP
USP6	9098	hgsc.bcm.edu	37	17	5049419	5049419	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	457.0	172.0	425.0	0.0	0.376368	0	.	.	none	.	USP6	213	.	NM_004505	exon20	c.C2269G	p.L757V	TGTGGACTTAATT	.	PASS	Atlas-SNP
STXBP5	134957	hgsc.bcm.edu	37	6	147612247	147612247	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	97.0	45.0	114.0	0.0	0.463918	0	.	.	none	.	STXBP5	163	.	NM_139244	exon9	c.G856T	p.G286W	AAGGATGGGAAGA	.	PASS	Atlas-SNP
KRTAP4-8	728224	hgsc.bcm.edu	37	17	39253949	39253949	+	Missense_Mutation	SNP	T	T	A	rs200040006		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	75.0	7.0	49.0	2.0	0.0933333	0.0408163	.	.	weak	KRTAP4-8,NS,carcinoma,0,4	KRTAP4-8	57	4	NM_031960	exon1	c.A388T	p.S130C	AGATGCTGCAGCT	.	scavenged	Atlas-SNP
HCAR3	8843	hgsc.bcm.edu	37	12	123200477	123200477	+	Missense_Mutation	SNP	G	G	A	rs201423596		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	148.0	20.0	118.0	0.0	0.135135	0	.	.	weak	.	HCAR3	49	.	NM_006018	exon1	c.C808T	p.R270C	CCGAGCGGTACAC	.	PASS	Atlas-SNP
GPR56	9289	hgsc.bcm.edu	37	16	57691387	57691387	+	Missense_Mutation	SNP	G	G	A	rs147479620	bycluster;byfrequency;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	24.0	20.0	49.0	0.0	0.833333	0	G|0.999;A|0.001	0.001	strong	.	GPR56	44	.	NM_001145773	exon10	c.G1285A	p.A429T	ATTGCCGCCTACC	.	PASS	Atlas-SNP
MAGEL2	54551	hgsc.bcm.edu	37	15	23890645	23890645	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	88.0	34.0	72.0	0.0	0.386364	0	.	.	none	MAGEL2_ENST00000532292,colon,carcinoma,0,2	MAGEL2	108	2	NM_019066	exon1	c.C2245T	p.R749C	TCATGCGGTCTTT	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152651974	152651974	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	74.0	34.0	79.0	0.0	0.459459	0	.	.	none	.	SYNE1	3227	.	NM_182961	exon78	c.G13846A	p.E4616K	GATTTTCATATTC	.	PASS	Atlas-SNP
SPPL2C	162540	hgsc.bcm.edu	37	17	43923211	43923211	+	Silent	SNP	G	G	A	rs150961436		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	47.0	19.0	33.0	0.0	0.404255	0	G|1.000;A|0.000	0.000	weak	IMP5,colon,carcinoma,+1,1	.	.	1	NM_175882	exon1	c.G939A	p.P313P	GCCTCCGCACAGC	.	PASS	Atlas-SNP
LIMD2	80774	hgsc.bcm.edu	37	17	61775957	61775957	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	55.0	23.0	76.0	0.0	0.418182	0	.	.	none	.	LIMD2	6	.	NM_030576	exon5	c.G339A	p.E113E	CCAGAGCTCCTTG	.	PASS	Atlas-SNP
ARMC9	80210	hgsc.bcm.edu	37	2	232099952	232099952	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	88.0	4.0	61.0	0.0	0.0454545	0	.	.	none	.	ARMC9	129	.	NM_025139	exon8	c.T638C	p.L213P	AGCAGCTCCACCA	.	PASS	Atlas-SNP
TREML2	79865	hgsc.bcm.edu	37	6	41166095	41166095	+	Missense_Mutation	SNP	T	T	C	rs141238140		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	94.0	6.0	67.0	0.0	0.0638298	0	.	.	weak	.	TREML2	41	.	NM_024807	exon2	c.A128G	p.Y43C	CCCTTATAGGAGC	.	PASS	Atlas-SNP
FBN1	2200	hgsc.bcm.edu	37	15	48779516	48779516	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	71.0	38.0	96.0	1.0	0.535211	0.0104167	.	.	none	FBN1,colon,carcinoma,-1,1	FBN1	310	1	NM_000138	exon28	c.G3456A	p.A1152A	GATACACGCGGAG	.	scavenged	Atlas-SNP
CACTIN	58509	hgsc.bcm.edu	37	19	3612193	3612193	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	222.0	107.0	201.0	0.0	0.481982	0	.	.	none	.	.	.	.	NM_021231	exon10	c.C2005T	p.P669S	TGGGCGGTGGGTT	.	PASS	Atlas-SNP
KRTAP4-11	653240	hgsc.bcm.edu	37	17	39274172	39274172	+	Silent	SNP	G	G	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	93.0	4.0	78.0	0.0	0.0430108	0	.	.	none	KRTAP4-11,NS,carcinoma,-2,2	KRTAP4-11	94	2	NM_033059	exon1	c.C396A	p.P132P	GCAGGTGGGCTGG	.	scavenged	Atlas-SNP
PTN	5764	hgsc.bcm.edu	37	7	136936058	136936058	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	274.0	131.0	229.0	0.0	0.478102	0	.	.	none	.	PTN	38	.	NM_002825	exon4	c.C370T	p.R124X	GGGCTCGCTTCAG	.	PASS	Atlas-SNP
RBM42	79171	hgsc.bcm.edu	37	19	36124108	36124108	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	32.0	4.0	32.0	0.0	0.125	0	.	.	none	.	RBM42	40	.	NM_024321	exon6	c.C638T	p.A213V	CTCGGGCTCCAGG	.	PASS	Atlas-SNP
SORL1	6653	hgsc.bcm.edu	37	11	121429298	121429298	+	Splice_Site	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	101.0	37.0	90.0	0.0	0.366337	0	.	.	none	.	SORL1	218	.	NM_003105	exon20	c.2664-2A>G	.	TTCGCTAGGGTGA	.	PASS	Atlas-SNP
KRT24	192666	hgsc.bcm.edu	37	17	38859553	38859553	+	Silent	SNP	G	G	T	rs367736597	alternate_allele	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	69.0	34.0	77.0	0.0	0.492754	0	.	.	alt	.	KRT24	60	.	NM_019016	exon1	c.C393A	p.G131G	CCCATCGCCAACA	.	PASS	Atlas-SNP
ABCA3	21	hgsc.bcm.edu	37	16	2326687	2326687	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	56.0	24.0	55.0	0.0	0.428571	0	.	.	none	ABCA3,NS,carcinoma,-2,1	ABCA3	176	1	NM_001089	exon33	c.G5103T	p.E1701D	CCCCTCCTCTGCG	.	PASS	Atlas-SNP
KCNC1	3746	hgsc.bcm.edu	37	11	17793670	17793670	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	64.0	31.0	51.0	0.0	0.484375	0	.	.	none	.	KCNC1	149	.	NM_004976	exon2	c.C1029T	p.N343N	CACCAACGAGTTC	.	PASS	Atlas-SNP
STAG2	10735	hgsc.bcm.edu	37	X	123182892	123182892	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	256.0	21.0	341.0	0.0	0.0820312	0	.	.	none	.	STAG2	309	.	NM_001042749	exon10	c.A857T	p.N286I	TGATGAATGCAAT	.	PASS	Atlas-SNP
PSME3	10197	hgsc.bcm.edu	37	17	40985663	40985663	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	160.0	70.0	153.0	0.0	0.4375	0	.	.	none	.	PSME3	11	.	NM_176863	exon1	c.G15A	p.L5L	GTTGCTGAAGGTG	.	PASS	Atlas-SNP
ABCA7	10347	hgsc.bcm.edu	37	19	1049321	1049321	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	133.0	6.0	132.0	0.0	0.0451128	0	.	.	none	.	ABCA7	174	.	NM_019112	exon18	c.G2437A	p.E813K	AGCCTGGAGAAGC	.	PASS	Atlas-SNP
TNFRSF11B	4982	hgsc.bcm.edu	37	8	119938922	119938922	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	106.0	5.0	96.0	0.0	0.0471698	0	.	.	none	.	TNFRSF11B	87	.	NM_002546	exon4	c.G628T	p.A210S	GAACAGCAAACCT	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092885	1092885	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	91.0	9.0	70.0	2.0	0.0989011	0.0285714	.	.	none	MUC2_ENST00000441003,NS,carcinoma,+1,8	MUC2	614	8	NM_002457	exon30	c.G4704A	p.T1568T	CACCACGGTGACC	.	scavenged	Atlas-SNP
STAB1	23166	hgsc.bcm.edu	37	3	52549477	52549477	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	95.0	4.0	108.0	0.0	0.0421053	0	.	.	none	.	STAB1	178	.	NM_015136	exon37	c.C3903T	p.F1301F	TGGCTTCTCCTTC	.	PASS	Atlas-SNP
RGAG1	57529	hgsc.bcm.edu	37	X	109697658	109697658	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	107.0	8.0	161.0	0.0	0.0747664	0	.	.	none	.	RGAG1	168	.	NM_020769	exon3	c.G3813A	p.R1271R	TCTACGGACCAGG	.	PASS	Atlas-SNP
VIT	5212	hgsc.bcm.edu	37	2	36970315	36970315	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	101.0	48.0	109.0	0.0	0.475248	0	.	.	none	.	VIT	138	.	NM_001177969	exon4	c.C191A	p.A64E	GTCCAGCAGGATG	.	PASS	Atlas-SNP
PHEX	5251	hgsc.bcm.edu	37	X	22117216	22117216	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	64.0	6.0	83.0	0.0	0.09375	0	.	.	none	.	PHEX	95	.	NM_000444	exon9	c.C1026T	p.R342R	GGTCCGCGTCCCG	.	PASS	Atlas-SNP
SNED1	25992	hgsc.bcm.edu	37	2	241992639	241992639	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	46.0	29.0	63.0	0.0	0.630435	0	.	.	none	.	SNED1	76	.	NM_001080437	exon16	c.C2153T	p.A718V	TGGGCGCGGTGGC	.	PASS	Atlas-SNP
MTMR10	54893	hgsc.bcm.edu	37	15	31266590	31266590	+	Nonsense_Mutation	SNP	A	A	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	127.0	70.0	104.0	0.0	0.551181	0	.	.	none	.	MTMR10	74	.	NM_017762	exon5	c.T401G	p.L134X	ATAATTAACTCTG	.	PASS	Atlas-SNP
OR4C6	219432	hgsc.bcm.edu	37	11	55433434	55433434	+	Silent	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	146.0	64.0	106.0	0.0	0.438356	0	.	.	none	OR4C6,NS,carcinoma,0,1	OR4C6	114	1	NM_001004704	exon1	c.C792A	p.P264P	TCACCCCATAGAC	.	PASS	Atlas-SNP
MANEA	79694	hgsc.bcm.edu	37	6	96053987	96053987	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	50.0	28.0	52.0	0.0	0.56	0	.	.	none	.	MANEA	58	.	NM_024641	exon5	c.C1095T	p.I365I	CAGCATCCGTCCA	.	PASS	Atlas-SNP
KLHL29	114818	hgsc.bcm.edu	37	2	23785138	23785138	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	66.0	26.0	66.0	0.0	0.393939	0	.	.	none	.	KLHL29	47	.	NM_052920	exon3	c.C72T	p.N24N	CGTCAACGGGACG	.	PASS	Atlas-SNP
MAGI3	260425	hgsc.bcm.edu	37	1	114191926	114191926	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	85.0	4.0	42.0	0.0	0.0470588	0	.	.	none	.	MAGI3	181	.	NM_152900	exon13	c.A2223G	p.L741L	GGTGCTAGGAGGA	.	PASS	Atlas-SNP
PLAC1	10761	hgsc.bcm.edu	37	X	133700486	133700486	+	Missense_Mutation	SNP	C	C	T	rs200146589	bycluster;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	116.0	5.0	207.0	0.0	0.0431034	0	C|0.999;T|0.001	0.001	strong	.	PLAC1	17	.	NM_021796	exon3	c.G227A	p.R76H	GTAACACGGTAGG	.	PASS	Atlas-SNP
CUL7	9820	hgsc.bcm.edu	37	6	43007981	43007981	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	123.0	5.0	116.0	0.0	0.0406504	0	.	.	none	.	CUL7	133	.	NM_001168370	exon22	c.T4459C	p.S1487P	AGATTGAGGCAAC	.	PASS	Atlas-SNP
SNX13	23161	hgsc.bcm.edu	37	7	17874490	17874490	+	Splice_Site	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	89.0	4.0	95.0	0.0	0.0449438	0	.	.	none	.	SNX13	113	.	NM_015132	exon15	c.1360-2A>G	.	GATGCCTAACAGA	.	PASS	Atlas-SNP
LDOC1	23641	hgsc.bcm.edu	37	X	140271025	140271025	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	35.0	24.0	54.0	0.0	0.685714	0	.	.	none	.	LDOC1	26	.	NM_012317	exon1	c.G182T	p.S61I	CGGGAGCTCTCGC	.	PASS	Atlas-SNP
COL3A1	1281	hgsc.bcm.edu	37	2	189864021	189864021	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	62.0	35.0	54.0	0.0	0.564516	0	.	.	none	.	COL3A1	292	.	NM_000090	exon30	c.G2033A	p.G678D	ATGCTGGTGCCCC	.	PASS	Atlas-SNP
ZNF555	148254	hgsc.bcm.edu	37	19	2852470	2852470	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	74.0	30.0	70.0	0.0	0.405405	0	.	.	none	.	ZNF555	61	.	NM_152791	exon4	c.T407A	p.I136N	AGAAAATTCCACC	.	PASS	Atlas-SNP
LRRN3	54674	hgsc.bcm.edu	37	7	110764121	110764121	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	64.0	34.0	58.0	0.0	0.53125	0	.	.	none	.	LRRN3	132	.	NM_018334	exon2	c.T1293C	p.N431N	TTCTAATCTAAAT	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49421689	49421689	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	182.0	65.0	145.0	0.0	0.357143	0	.	.	none	.	MLL2	1173	.	NM_003482	exon47	c.G14540T	p.G4847V	CTCTTGCCTTCCA	.	PASS	Atlas-SNP
C11orf88	399949	hgsc.bcm.edu	37	11	111385703	111385703	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	59.0	28.0	50.0	0.0	0.474576	0	.	.	none	.	C11orf88	37	.	NM_001100388	exon1	c.C194T	p.P65L	GTCTGCCGGTGGC	.	PASS	Atlas-SNP
OR4D1	26689	hgsc.bcm.edu	37	17	56232687	56232687	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	131.0	64.0	103.0	0.0	0.48855	0	.	.	none	.	OR4D1	48	.	NM_012374	exon1	c.C173A	p.P58H	ACACACCCATGTA	.	PASS	Atlas-SNP
C2orf53	339779	hgsc.bcm.edu	37	2	27360666	27360666	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	96.0	7.0	72.0	0.0	0.0729167	0	.	.	none	.	C2orf53	45	.	NM_178553	exon3	c.T532C	p.W178R	GATGCCAGCGCCA	.	PASS	Atlas-SNP
CYTB	0	hgsc.bcm.edu	37	MT	15622	15622	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	8.0	8.0	8.0	0.0	1	0	.	.	none	.	.	.	.	ENST00000361789	exon1	c.T876C	p.L292L	CGTCCTTGCCCTA	.	PASS	Atlas-SNP
RGL3	57139	hgsc.bcm.edu	37	19	11529920	11529920	+	Splice_Site	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	98.0	5.0	76.0	0.0	0.0510204	0	.	.	none	.	RGL3	100	.	NM_001161616	exon2	c.33+2T>C	.	CCCCTTACCAGGG	.	PASS	Atlas-SNP
EPHB2	2048	hgsc.bcm.edu	37	1	23236932	23236932	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	78.0	59.0	138.0	0.0	0.75641	0	.	.	none	EPHB2,colon,carcinoma,0,1	EPHB2	257	1	NM_004442	exon14	c.G2563A	p.A855T	CCGAGCGCCCTGC	.	PASS	Atlas-SNP
MPDZ	8777	hgsc.bcm.edu	37	9	13150599	13150599	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	109.0	42.0	91.0	0.0	0.385321	0	.	.	none	.	MPDZ	324	.	NM_003829	exon25	c.G3541A	p.V1181M	TCATCACTTCTCC	.	PASS	Atlas-SNP
SETD1B	23067	hgsc.bcm.edu	37	12	122248314	122248314	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	81.0	35.0	57.0	0.0	0.432099	0	.	.	none	.	SETD1B	105	.	NM_015048	exon5	c.C1463T	p.S488F	AGTCGTCCCCTGC	.	PASS	Atlas-SNP
EPHA7	2045	hgsc.bcm.edu	37	6	94120454	94120454	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	178.0	78.0	143.0	0.0	0.438202	0	.	.	none	.	EPHA7	251	.	NM_004440	exon3	c.A597C	p.K199N	GTACACTTTGACA	.	PASS	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	37	8	114111175	114111175	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	80.0	40.0	57.0	0.0	0.5	0	.	.	none	CSMD3_ENST00000343508,NS,carcinoma,+1,2	CSMD3	2325	2	NM_052900	exon5	c.G727T	p.G243X	TTGTTCCTCCACA	.	PASS	Atlas-SNP
ESYT3	83850	hgsc.bcm.edu	37	3	138181019	138181019	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	254.0	148.0	130.0	0.0	0.582677	0	.	.	none	.	ESYT3	64	.	NM_031913	exon8	c.C886G	p.L296V	CTGGATCTGACCA	.	PASS	Atlas-SNP
ITGB3	3690	hgsc.bcm.edu	37	17	45331302	45331302	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	7.0	5.0	4.0	0.0	0.714286	0	.	.	none	.	ITGB3	157	.	NM_000212	exon1	c.A75G	p.V25V	TGGCGTAGGAGGT	.	PASS	Atlas-SNP
ZCCHC8	55596	hgsc.bcm.edu	37	12	122975093	122975093	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	78.0	4.0	37.0	0.0	0.0512821	0	.	.	none	.	ZCCHC8	56	.	NM_017612	exon4	c.G339A	p.E113E	AAATTCCTCTATT	.	PASS	Atlas-SNP
HIST1H4F	8361	hgsc.bcm.edu	37	6	26240696	26240696	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	80.0	37.0	66.0	0.0	0.4625	0	.	.	none	.	HIST1H4F	9	.	NM_003540	exon1	c.G43A	p.G15S	AAGGGAGGCGCCA	.	PASS	Atlas-SNP
SPINK5	11005	hgsc.bcm.edu	37	5	147470759	147470759	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	26.0	10.0	27.0	0.0	0.384615	0	.	.	none	.	SPINK5	245	.	NM_001127699	exon8	c.G634A	p.G212S	CGAGAGGGTGAAA	.	PASS	Atlas-SNP
MMP15	4324	hgsc.bcm.edu	37	16	58073912	58073912	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	48.0	6.0	84.0	0.0	0.125	0	.	.	none	MMP15,NS,malignant_melanoma,0,1	MMP15	58	1	NM_002428	exon4	c.C574T	p.Q192X	CGGCGACAGAAGG	.	PASS	Atlas-SNP
S100A6	6277	hgsc.bcm.edu	37	1	153507187	153507187	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	93.0	4.0	89.0	0.0	0.0430108	0	.	.	none	.	S100A6	8	.	NM_014624	exon3	c.A258G	p.E86E	GAGGGCTTCATTG	.	PASS	Atlas-SNP
ARFGAP1	55738	hgsc.bcm.edu	37	20	61907883	61907883	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	256.0	105.0	207.0	0.0	0.410156	0	.	.	none	.	ARFGAP1	38	.	NM_018209	exon4	c.G222A	p.K74K	TGAGAAGATGAAA	.	PASS	Atlas-SNP
IL37	27178	hgsc.bcm.edu	37	2	113674819	113674819	+	Missense_Mutation	SNP	C	C	T	rs370690543		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	127.0	42.0	121.0	0.0	0.330709	0	.	.	weak	.	IL37	56	.	NM_014439	exon3	c.C259T	p.R87C	TACATACGCCCAG	.	PASS	Atlas-SNP
TAOK1	57551	hgsc.bcm.edu	37	17	27829683	27829683	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	146.0	65.0	111.0	0.0	0.445205	0	.	.	none	.	TAOK1	151	.	NM_025142	exon13	c.G1280A	p.R427H	TATCTCGTCACAA	.	PASS	Atlas-SNP
MPP7	143098	hgsc.bcm.edu	37	10	28527517	28527517	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	53.0	24.0	49.0	0.0	0.45283	0	.	.	none	MPP7,rectum,carcinoma,+1,2	MPP7	60	2	NM_173496	exon4	c.C17T	p.T6M	GATCCCGTTGACA	.	PASS	Atlas-SNP
T	6862	hgsc.bcm.edu	37	6	166578142	166578142	+	Silent	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	87.0	4.0	58.0	0.0	0.045977	0	.	.	none	.	T	77	.	NM_003181	exon6	c.A681G	p.K227K	CATCTCTTTGTGA	.	PASS	Atlas-SNP
TREML2	79865	hgsc.bcm.edu	37	6	41166123	41166123	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	100.0	6.0	70.0	0.0	0.06	0	.	.	none	.	TREML2	41	.	NM_024807	exon2	c.G100A	p.G34R	TCTCCCCTTCAAG	.	PASS	Atlas-SNP
ONECUT2	9480	hgsc.bcm.edu	37	18	55103350	55103350	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	25.0	9.0	27.0	0.0	0.36	0	.	.	none	.	ONECUT2	42	.	NM_004852	exon1	c.C402T	p.S134S	CATGTCCTGCGAC	.	PASS	Atlas-SNP
DNAH1	25981	hgsc.bcm.edu	37	3	52400534	52400534	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	114.0	48.0	117.0	0.0	0.421053	0	.	.	none	.	DNAH1	534	.	NM_015512	exon35	c.C5580T	p.L1860L	CATGCTCGTCGGG	.	PASS	Atlas-SNP
HCAR2	338442	hgsc.bcm.edu	37	12	123187023	123187023	+	Missense_Mutation	SNP	G	G	A	rs201423596		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	285.0	67.0	238.0	0.0	0.235088	0	.	.	weak	.	HCAR2	36	.	NM_177551	exon1	c.C808T	p.R270C	CCGAGCGGTACAC	.	PASS	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	37	4	155411418	155411418	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	10.0	7.0	31.0	0.0	0.7	0	.	.	none	.	DCHS2	594	.	NM_001142552	exon1	c.G1090A	p.V364M	GCACCACGCCGCT	.	PASS	Atlas-SNP
CLASP1	23332	hgsc.bcm.edu	37	2	122135079	122135079	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	157.0	70.0	165.0	0.0	0.44586	0	.	.	none	.	CLASP1	135	.	NM_015282	exon33	c.A3638G	p.D1213G	ACAATATCACACT	.	PASS	Atlas-SNP
NEB	4703	hgsc.bcm.edu	37	2	152536281	152536281	+	Missense_Mutation	SNP	G	G	A	rs371710158	alternate_allele	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	149.0	60.0	132.0	1.0	0.402685	0.00757576	.	.	alt	NEB,NS,carcinoma,0,1	NEB	1697	1	NM_004543	exon32	c.C3209T	p.A1070V	GGAATCGCATCAG	.	scavenged	Atlas-SNP
KLHL6	89857	hgsc.bcm.edu	37	3	183273170	183273170	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	282.0	99.0	172.0	0.0	0.351064	0	.	.	none	.	KLHL6	100	.	NM_130446	exon1	c.C272T	p.A91V	GCTGCGGCAAGCA	.	PASS	Atlas-SNP
KIF1A	547	hgsc.bcm.edu	37	2	241696843	241696843	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	49.0	4.0	42.0	0.0	0.0816327	0	.	.	none	.	KIF1A	152	.	NM_001244008	exon27	c.G2751T	p.E917D	CTCATCCTCCTCC	.	PASS	Atlas-SNP
CCDC130	81576	hgsc.bcm.edu	37	19	13873535	13873535	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	38.0	14.0	36.0	0.0	0.368421	0	.	.	none	CCDC130,NS,carcinoma,-1,1	CCDC130	25	1	NM_030818	exon10	c.G844A	p.A282T	AGAACCGCGCTTG	.	PASS	Atlas-SNP
UBR5	51366	hgsc.bcm.edu	37	8	103269903	103269903	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	76.0	40.0	72.0	0.0	0.526316	0	.	.	none	.	UBR5	285	.	NM_015902	exon58	c.G8144A	p.W2715X	ATTGACCAGAACC	.	PASS	Atlas-SNP
FOXP4	116113	hgsc.bcm.edu	37	6	41557528	41557528	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	107.0	35.0	70.0	0.0	0.327103	0	.	.	none	.	FOXP4	83	.	NM_001012426	exon10	c.G1085A	p.R362Q	GCGAGCGGCTGCA	.	PASS	Atlas-SNP
C3orf79	152118	hgsc.bcm.edu	37	3	153203809	153203809	+	Silent	SNP	C	C	T	rs57748412	bycluster;byfrequency;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	95.0	4.0	53.0	0.0	0.0421053	0	C|0.985;T|0.015	0.015	strong	.	C3orf79	13	.	NM_001101337	exon2	c.C138T	p.S46S	GACTTCCGGTTGT	.	PASS	Atlas-SNP
CHAD	1101	hgsc.bcm.edu	37	17	48543124	48543124	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	92.0	40.0	119.0	0.0	0.434783	0	.	.	none	.	CHAD	36	.	NM_001267	exon2	c.C882T	p.T294T	GGCGAGGGTCTCC	.	PASS	Atlas-SNP
TNFRSF14	8764	hgsc.bcm.edu	37	1	2488105	2488105	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	73.0	69.0	73.0	0.0	0.945205	0	.	.	none	.	TNFRSF14	89	.	NM_003820	exon1	c.T2C	p.M1T	GAGGCATGGAGCC	.	PASS	Atlas-SNP
MTMR1	8776	hgsc.bcm.edu	37	X	149896262	149896262	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	67.0	50.0	110.0	0.0	0.746269	0	.	.	none	.	MTMR1	82	.	NM_003828	exon5	c.A530G	p.K177R	TGTGCAAGGTATA	.	PASS	Atlas-SNP
JMY	133746	hgsc.bcm.edu	37	5	78587039	78587039	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	65.0	4.0	49.0	0.0	0.0615385	0	.	.	none	.	JMY	82	.	NM_152405	exon4	c.T1444C	p.Y482H	CTCCAGTATGCAG	.	PASS	Atlas-SNP
GLB1L3	112937	hgsc.bcm.edu	37	11	134188798	134188798	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	80.0	30.0	100.0	0.0	0.375	0	.	.	none	.	GLB1L3	102	.	NM_001080407	exon20	c.G1924A	p.G642S	ATGAGTGGCTCAG	.	PASS	Atlas-SNP
SND1	27044	hgsc.bcm.edu	37	7	127447592	127447592	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	88.0	4.0	101.0	0.0	0.0454545	0	.	.	none	.	SND1	104	.	NM_014390	exon11	c.C1207T	p.R403W	GAGGCCCGGGAAT	.	PASS	Atlas-SNP
ZP3	7784	hgsc.bcm.edu	37	7	76058885	76058885	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	127.0	54.0	136.0	0.0	0.425197	0	.	.	none	.	ZP3	32	.	NM_001110354	exon2	c.C366T	p.P122P	CCGCCCCGTGGGA	.	PASS	Atlas-SNP
COPB1	1315	hgsc.bcm.edu	37	11	14504615	14504615	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	40.0	4.0	53.0	0.0	0.1	0	.	.	none	.	COPB1	81	.	NM_001144062	exon8	c.A920G	p.E307G	TTTAATTCTATCA	.	PASS	Atlas-SNP
FKBP9	11328	hgsc.bcm.edu	37	7	33014908	33014908	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	121.0	7.0	98.0	1.0	0.0578512	0.0102041	.	.	none	FKBP9,brain,glioma,0,9	FKBP9	335	9	NM_007270	exon3	c.G482A	p.R161Q	GCCCTCGGACCAT	.	scavenged	Atlas-SNP
ARMC8	25852	hgsc.bcm.edu	37	3	138009387	138009387	+	Splice_Site	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	147.0	44.0	83.0	0.0	0.29932	0	.	.	none	.	ARMC8	79	.	NM_015396	exon22	c.1853-1G>A	.	CGTTTAGGTTCAC	.	PASS	Atlas-SNP
UBE2A	7319	hgsc.bcm.edu	37	X	118708868	118708868	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	106.0	81.0	183.0	0.0	0.764151	0	.	.	none	.	UBE2A	43	.	NM_003336	exon2	c.C49T	p.Q17X	AGGTTGCAGGAGG	.	PASS	Atlas-SNP
DDX52	11056	hgsc.bcm.edu	37	17	36003419	36003419	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	53.0	4.0	40.0	0.0	0.0754717	0	.	.	none	.	DDX52	40	.	NM_007010	exon1	c.G31A	p.G11S	CCGCGCCGAGCCG	.	PASS	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	37	1	145293535	145293535	+	Missense_Mutation	SNP	C	C	G	rs55936365		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	142.0	7.0	98.0	1.0	0.0492958	0.0102041	.	.	weak	NBPF10,NS,carcinoma,0,2	NBPF10	221	2	NM_001039703	exon1	c.C130G	p.L44V	TGTTTTCTAACTC	.	scavenged	Atlas-SNP
PLEKHO2	80301	hgsc.bcm.edu	37	15	65157677	65157677	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	29.0	14.0	22.0	0.0	0.482759	0	.	.	none	.	PLEKHO2	50	.	NM_025201	exon6	c.C1063G	p.P355A	GCCAAGCCCTCTC	.	PASS	Atlas-SNP
DOCK9	23348	hgsc.bcm.edu	37	13	99537314	99537314	+	Missense_Mutation	SNP	C	C	T	rs370847473		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	60.0	3.0	57.0	0.0	0.05	0	.	.	weak	DOCK9_ENST00000448493,left_upper_lobe,carcinoma,+1,3	DOCK9	311	3	NM_001130049	exon21	c.G2296A	p.G766R	CCCTTCCGTCTTT	.	scavenged	Atlas-SNP
MYC	4609	hgsc.bcm.edu	37	8	128750820	128750820	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	122.0	60.0	94.0	0.0	0.491803	0	.	.	none	.	MYC	168	.	NM_002467	exon2	c.G357A	p.E119E	GACCGAGCTGCTG	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45234463	45234463	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	45.0	3.0	31.0	0.0	0.0666667	0	.	.	none	CDC27_ENST00000531206,NS,carcinoma,0,2	CDC27	337	2	NM_001114091	exon7	c.T658G	p.S220A	AATTGGAAGATTC	.	scavenged	Atlas-SNP
OR52R1	119695	hgsc.bcm.edu	37	11	4825192	4825192	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	56.0	27.0	52.0	0.0	0.482143	0	.	.	none	.	OR52R1	81	.	NM_001005177	exon1	c.C419T	p.T140I	GATGGGGTCAGGA	.	PASS	Atlas-SNP
ARHGAP28	79822	hgsc.bcm.edu	37	18	6882194	6882194	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	101.0	83.0	172.0	0.0	0.821782	0	.	.	none	.	ARHGAP28	181	.	NM_001010000	exon10	c.T872A	p.M291K	ACAAAATGTGCCA	.	PASS	Atlas-SNP
PIWIL1	9271	hgsc.bcm.edu	37	12	130847589	130847589	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	130.0	43.0	139.0	0.0	0.330769	0	.	.	none	.	PIWIL1	157	.	NM_004764	exon18	c.G2095A	p.V699M	ATCATCGTGTACC	.	PASS	Atlas-SNP
MED27	9442	hgsc.bcm.edu	37	9	134736013	134736013	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	121.0	9.0	141.0	0.0	0.0743802	0	.	.	none	.	MED27	37	.	NM_004269	exon8	c.G848A	p.R283H	CCGCAGCGCTGGC	.	PASS	Atlas-SNP
ABLIM1	3983	hgsc.bcm.edu	37	10	116331143	116331143	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	106.0	52.0	85.0	0.0	0.490566	0	.	.	none	.	ABLIM1	131	.	NM_002313	exon4	c.C586T	p.R196X	TGACTCGGTCTCC	.	PASS	Atlas-SNP
WIPI1	55062	hgsc.bcm.edu	37	17	66449072	66449072	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	68.0	4.0	66.0	0.0	0.0588235	0	.	.	none	.	WIPI1	46	.	NM_017983	exon2	c.C142T	p.L48L	GATCCAGCTGCTC	.	PASS	Atlas-SNP
TM9SF2	9375	hgsc.bcm.edu	37	13	100204538	100204538	+	Silent	SNP	G	G	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	234.0	25.0	177.0	0.0	0.106838	0	.	.	none	.	TM9SF2	52	.	NM_004800	exon13	c.G1446C	p.V482V	ATCTGTGCCTCTG	.	PASS	Atlas-SNP
NEK1	4750	hgsc.bcm.edu	37	4	170400567	170400567	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	109.0	92.0	152.0	0.0	0.844037	0	.	.	none	.	NEK1	203	.	NM_001199397	exon24	c.A2126T	p.K709I	ACTTCTTTCAAAG	.	PASS	Atlas-SNP
MLL	4297	hgsc.bcm.edu	37	11	118371761	118371761	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	121.0	25.0	112.0	0.0	0.206612	0	.	.	none	.	MLL	548	.	NM_001197104	exon25	c.A6218G	p.K2073R	CATGCAAGATAGT	.	PASS	Atlas-SNP
CNNM3	26505	hgsc.bcm.edu	37	2	97483238	97483238	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	66.0	3.0	70.0	1.0	0.0454545	0.0142857	.	.	none	CNNM3,NS,carcinoma,0,1	CNNM3	33	1	NM_199078	exon1	c.A1224G	p.R408R	CAAGCGAGGTAAC	.	scavenged	Atlas-SNP
C21orf2	755	hgsc.bcm.edu	37	21	45753051	45753051	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	129.0	56.0	100.0	0.0	0.434109	0	.	.	none	.	C21orf2	10	.	NM_004928	exon4	c.C238T	p.L80F	AGAAGAGCTCAGC	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230278	23230278	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	75.0	65.0	159.0	0.0	0.866667	0	.	.	none	IGLL5,NS,lymphoid_neoplasm,0,1	IGLL5	26	1	NM_001178126	exon1	c.G45A	p.E15E	TGAGGAGCTGGGC	.	PASS	Atlas-SNP
RAD51AP1	10635	hgsc.bcm.edu	37	12	4668142	4668142	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	70.0	29.0	68.0	0.0	0.414286	0	.	.	none	.	RAD51AP1	30	.	NM_001130862	exon10	c.A1042G	p.N348D	CATCCAAATGCCA	.	PASS	Atlas-SNP
FANCM	57697	hgsc.bcm.edu	37	14	45624650	45624650	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	128.0	40.0	119.0	0.0	0.3125	0	.	.	none	.	FANCM	225	.	NM_020937	exon8	c.A1384T	p.K462X	CACTTCAAGTCAT	.	PASS	Atlas-SNP
CBWD3	445571	hgsc.bcm.edu	37	9	70871857	70871857	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	484.0	112.0	399.0	0.0	0.231405	0	.	.	none	.	CBWD3	10	.	NM_201453	exon5	c.T451A	p.W151R	ATGTTTTGGGTTG	.	PASS	Atlas-SNP
COL6A1	1291	hgsc.bcm.edu	37	21	47423737	47423737	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	88.0	39.0	95.0	0.0	0.443182	0	.	.	none	.	COL6A1	101	.	NM_001848	exon35	c.G2897A	p.G966D	GGGCAGGCATCGA	.	PASS	Atlas-SNP
ZFHX4	79776	hgsc.bcm.edu	37	8	77766731	77766731	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	105.0	12.0	81.0	0.0	0.114286	0	.	.	none	.	ZFHX4	878	.	NM_024721	exon10	c.A7574T	p.H2525L	TCCTTCACTCTCC	.	PASS	Atlas-SNP
DIAPH1	1729	hgsc.bcm.edu	37	5	140953563	140953563	+	Silent	SNP	T	T	A	rs374236039		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	35.0	8.0	16.0	1.0	0.228571	0.0625	.	.	weak	DIAPH1,NS,carcinoma,0,1	DIAPH1	64	1	NM_005219	exon16	c.A1854T	p.P618P	AGGAGGTGGAGGA	.	scavenged	Atlas-SNP
CTNND2	1501	hgsc.bcm.edu	37	5	11732341	11732341	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	58.0	25.0	45.0	0.0	0.431034	0	.	.	none	.	CTNND2	289	.	NM_001332	exon2	c.G81T	p.K27N	ACTCGTCTTCTCT	.	PASS	Atlas-SNP
SLC27A5	10998	hgsc.bcm.edu	37	19	59010920	59010920	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	76.0	28.0	64.0	0.0	0.368421	0	.	.	none	.	SLC27A5	58	.	NM_012254	exon7	c.G1606A	p.V536I	CCAGTACGTCCCC	.	PASS	Atlas-SNP
MTMR1	8776	hgsc.bcm.edu	37	X	149896207	149896207	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	122.0	92.0	196.0	0.0	0.754098	0	.	.	none	.	MTMR1	82	.	NM_003828	exon5	c.A475C	p.K159Q	GTGGAGAAGATTG	.	PASS	Atlas-SNP
KIAA1244	57221	hgsc.bcm.edu	37	6	138583857	138583857	+	Missense_Mutation	SNP	G	G	A	rs149573553	bycluster;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	127.0	49.0	116.0	0.0	0.385827	0	G|0.999;A|0.001	0.001	strong	.	KIAA1244	236	.	NM_020340	exon12	c.G1237A	p.E413K	ATGACCGAAGCAT	.	PASS	Atlas-SNP
TDRD6	221400	hgsc.bcm.edu	37	6	46656149	46656149	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	23.0	12.0	18.0	0.0	0.521739	0	.	.	none	.	TDRD6	205	.	NM_001168359	exon1	c.G284A	p.R95H	AGAGCCGTGTCTT	.	PASS	Atlas-SNP
MAP2K3	5606	hgsc.bcm.edu	37	17	21208440	21208440	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	124.0	17.0	101.0	0.0	0.137097	0	.	.	none	.	MAP2K3	135	.	NM_145109	exon9	c.G774A	p.M258I	CACCATGGTACTG	.	PASS	Atlas-SNP
UPF3A	65110	hgsc.bcm.edu	37	13	115057219	115057219	+	Silent	SNP	A	A	G	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	103.0	5.0	67.0	0.0	0.0485437	0	.	.	none	.	UPF3A	47	.	NM_023011	exon7	c.A798G	p.K266K	AAAAAAAGAGACA	.	PASS	Atlas-SNP
SPTBN2	6712	hgsc.bcm.edu	37	11	66472275	66472275	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	20.0	2.0	11.0	0.0	0.1	0	.	.	none	SPTBN2,right_lower_lobe,carcinoma,0,1	SPTBN2	188	1	NM_006946	exon14	c.G2472A	p.Q824Q	CCGGCTCTGCACC	.	scavenged	Atlas-SNP
AP5Z1	9907	hgsc.bcm.edu	37	7	4823361	4823361	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	83.0	39.0	101.0	0.0	0.46988	0	.	.	none	.	.	.	.	NM_014855	exon5	c.C553T	p.R185C	TGGCTGCGCTACG	.	PASS	Atlas-SNP
OR4C6	219432	hgsc.bcm.edu	37	11	55433333	55433333	+	Missense_Mutation	SNP	C	C	T	rs140747151	bycluster;byfrequency;by1000genomes	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	172.0	68.0	109.0	0.0	0.395349	0	C|0.999;T|0.001	0.001	strong	OR4C6,middle_lobe,carcinoma,0,4	OR4C6	114	4	NM_001004704	exon1	c.C691T	p.R231W	AAAGGGCGGCACA	.	PASS	Atlas-SNP
HSPA12A	259217	hgsc.bcm.edu	37	10	118464772	118464772	+	Silent	SNP	G	G	A	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	119.0	45.0	103.0	0.0	0.378151	0	.	.	none	.	HSPA12A	81	.	NM_025015	exon3	c.C144T	p.N48N	TGAGACGTTGGAG	.	PASS	Atlas-SNP
LIMD2	80774	hgsc.bcm.edu	37	17	61776164	61776164	+	Silent	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	91.0	39.0	93.0	0.0	0.428571	0	.	.	none	.	LIMD2	6	.	NM_030576	exon4	c.G219A	p.K73K	CCTGAGCTTGGTG	.	PASS	Atlas-SNP
TAS1R2	80834	hgsc.bcm.edu	37	1	19175988	19175988	+	Silent	SNP	G	G	A	rs146531311	byfrequency	TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	125.0	54.0	113.0	0.0	0.432	0	G|1.000;A|0.000	0.000	strong	TAS1R2,NS,carcinoma,0,1	TAS1R2	134	1	NM_152232	exon4	c.C1314T	p.F438F	CGGGTCGAAGAAG	.	PASS	Atlas-SNP
UFSP2	55325	hgsc.bcm.edu	37	4	186329507	186329507	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	73.0	4.0	127.0	0.0	0.0547945	0	.	.	none	.	UFSP2	33	.	NM_018359	exon8	c.G914A	p.R305Q	AGAGATCGATAAG	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230380	23230380	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-8047-01A-11D-2210-10	TCGA-FF-8047-10A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1b1780d5-06da-40ee-9e15-02631a68027b	07c3103c-94ed-4fee-968d-318721aa84a9	63.0	50.0	123.0	0.0	0.793651	0	.	.	none	.	IGLL5	26	.	NM_001256296	exon1	c.C41T	p.T14I	CGGGGACCCAGAC	.	PASS	Atlas-SNP