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
CREBBP	1387	hgsc.bcm.edu	37	16	3781324	3781326	+	In_Frame_Del	DEL	AGG	AGG	-	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	AGG	AGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	103.0	21.0	111.0	0.0	0.204	.	.	.	none	.	CREBBP	546	.	NM_004380	exon30	c.5040_5042del	p.1680_1681del	.	.	PASS	Pindel,Atlas-Indel
KCNMB3	27094	hgsc.bcm.edu	37	3	178960904	178960904	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	452.0	47.0	333.0	0.0	0.103982	0	.	.	none	.	KCNMB3	46	.	NM_014407	exon4	c.629delT	p.I210fs	.	.	PASS	Atlas-Indel
CACNA2D1	781	hgsc.bcm.edu	37	7	81642816	81642818	+	In_Frame_Del	DEL	ATA	ATA	-	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	ATA	ATA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	524.0	54.0	416.0	0.0	0.103053	0	.	.	none	.	CACNA2D1	191	.	NM_000722	exon14	c.1232_1234del	p.411_412del	.	.	PASS	Atlas-Indel
MUC2	4583	hgsc.bcm.edu	37	11	1092618	1092619	+	In_Frame_Ins	INS	-	-	CCA	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	58.0	19.0	66.0	0.0	0.327586	0	.	.	none	.	MUC2	614	.	NM_002457	exon30	c.4437_4438insCCA	p.P1479delinsPP	.	.	PASS	Atlas-Indel
USP39	10713	hgsc.bcm.edu	37	2	85857936	85857936	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	258.0	67.0	212.0	0.0	0.25969	0	.	.	none	.	USP39	33	.	NM_001256725	exon6	c.G816C	p.L272F	GTTCTTGTTGGTC	.	PASS	Atlas-SNP
B3GAT2	135152	hgsc.bcm.edu	37	6	71571677	71571677	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	217.0	28.0	229.0	0.0	0.129032	0	.	.	none	.	B3GAT2	33	.	NM_080742	exon3	c.T741C	p.F247F	TACAGCAAATCCT	.	PASS	Atlas-SNP
ASXL2	55252	hgsc.bcm.edu	37	2	25966254	25966254	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	77.0	16.0	76.0	0.0	0.207792	0	.	.	none	.	ASXL2	217	.	NM_018263	exon12	c.A2952G	p.A984A	CTCTTTTGCAGTC	.	PASS	Atlas-SNP
TTBK1	84630	hgsc.bcm.edu	37	6	43250767	43250767	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	32.0	7.0	21.0	0.0	0.21875	0	.	.	none	.	TTBK1	124	.	NM_032538	exon14	c.G2289A	p.E763E	AGAAGAGGAGGAG	.	PASS	Atlas-SNP
PREX1	57580	hgsc.bcm.edu	37	20	47262400	47262400	+	Silent	SNP	G	G	A	rs141398646	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	54.0	12.0	68.0	0.0	0.222222	0	G|0.999;A|0.001	0.001	strong	.	PREX1	441	.	NM_020820	exon26	c.C3501T	p.R1167R	GGAGTCGCGATAA	.	PASS	Atlas-SNP
LRP1B	53353	hgsc.bcm.edu	37	2	141819775	141819775	+	Silent	SNP	G	G	T	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	141.0	26.0	181.0	0.0	0.184397	0	.	.	none	LRP1B,NS,carcinoma,+1,3	LRP1B	1315	3	NM_018557	exon8	c.C1081A	p.R361R	TTGTTCGGTTCAT	.	PASS	Atlas-SNP
EFR3B	22979	hgsc.bcm.edu	37	2	25351099	25351099	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	106.0	33.0	97.0	0.0	0.311321	0	.	.	none	.	EFR3B	29	.	NM_014971	exon6	c.C533A	p.T178K	GGAAGACGGTGAA	.	PASS	Atlas-SNP
CELSR3	1951	hgsc.bcm.edu	37	3	48698377	48698377	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	81.0	15.0	107.0	0.0	0.185185	0	.	.	none	.	CELSR3	237	.	NM_001407	exon1	c.T1691G	p.V564G	CGCAGCACGACTG	.	PASS	Atlas-SNP
OR2L2	26246	hgsc.bcm.edu	37	1	248202348	248202348	+	Missense_Mutation	SNP	G	G	A	rs138166879		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	116.0	18.0	149.0	0.0	0.155172	0	G|1.000;A|0.000	0.000	weak	OR2L2,right_upper_lobe,carcinoma,+1,2	OR2L2	115	2	NM_001004686	exon1	c.G779A	p.R260H	ATGTACGTCCAAG	.	PASS	Atlas-SNP
HIST1H2BL	8340	hgsc.bcm.edu	37	6	27775319	27775319	+	Nonsense_Mutation	SNP	G	G	T	rs141178835	by1000genomes;alternate_allele	TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	139.0	17.0	128.0	0.0	0.122302	0	G|1.000;A|0.000	.	alt	HIST1H2BL,NS,carcinoma,0,2	HIST1H2BL	48	2	NM_003519	exon1	c.C366A	p.Y122X	GCTGGTGTACTTG	.	PASS	Atlas-SNP
ZDHHC6	64429	hgsc.bcm.edu	37	10	114200386	114200386	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	96.0	17.0	117.0	0.0	0.177083	0	.	.	none	.	ZDHHC6	32	.	NM_022494	exon5	c.T587G	p.V196G	AATGGAACAATTG	.	PASS	Atlas-SNP
ASXL2	55252	hgsc.bcm.edu	37	2	25966225	25966225	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	74.0	14.0	67.0	0.0	0.189189	0	.	.	none	.	ASXL2	217	.	NM_018263	exon12	c.T2981A	p.I994K	GTAGCTATGAGCG	.	PASS	Atlas-SNP
REV1	51455	hgsc.bcm.edu	37	2	100065955	100065955	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	126.0	27.0	127.0	0.0	0.214286	0	.	.	none	.	REV1	100	.	NM_001037872	exon4	c.G193A	p.E65K	ATTCCTCAGCGGA	.	PASS	Atlas-SNP
SETMAR	6419	hgsc.bcm.edu	37	3	4354652	4354652	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	171.0	50.0	153.0	0.0	0.292398	0	.	.	none	.	SETMAR	30	.	NM_001243723	exon2	c.T227C	p.I76T	GATGCATTTGTGT	.	PASS	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	37	11	92533495	92533495	+	Missense_Mutation	SNP	G	G	A	rs149993900	bycluster;by1000genomes	TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	96.0	12.0	123.0	0.0	0.125	0	G|1.000;A|0.000	0.000	strong	.	FAT3	1822	.	NM_001008781	exon9	c.G7316A	p.R2439Q	ATGACCGGACGAG	.	PASS	Atlas-SNP
PTPN13	5783	hgsc.bcm.edu	37	4	87696720	87696720	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	132.0	22.0	126.0	0.0	0.166667	0	.	.	none	.	PTPN13	203	.	NM_080685	exon35	c.G5821A	p.G1941R	GTGAACGGAGTCA	.	PASS	Atlas-SNP
LPCAT2	54947	hgsc.bcm.edu	37	16	55608567	55608567	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	179.0	21.0	175.0	0.0	0.117318	0	.	.	none	.	LPCAT2	35	.	NM_017839	exon12	c.C1240T	p.R414X	GACTTCCGAGAGT	.	PASS	Atlas-SNP
UBA6	55236	hgsc.bcm.edu	37	4	68530944	68530944	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	396.0	60.0	360.0	0.0	0.151515	0	.	.	none	.	UBA6	98	.	NM_018227	exon10	c.T860C	p.I287T	ACAGCTATGCCTC	.	PASS	Atlas-SNP
NRD1	4898	hgsc.bcm.edu	37	1	52306075	52306075	+	Silent	SNP	T	T	C	rs78724482	bycluster;byfrequency	TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	370.0	35.0	356.0	0.0	0.0945946	0	T|0.952;C|0.048	0.048	strong	.	NRD1	89	.	NM_001101662	exon2	c.A453G	p.E151E	TTCTTCTTCCTCC	.	PASS	Atlas-SNP
ASXL2	55252	hgsc.bcm.edu	37	2	25966278	25966278	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	89.0	14.0	79.0	0.0	0.157303	0	.	.	none	.	ASXL2	217	.	NM_018263	exon12	c.A2928G	p.E976E	TTTCATTTCAACT	.	PASS	Atlas-SNP
NRD1	4898	hgsc.bcm.edu	37	1	52306079	52306079	+	Missense_Mutation	SNP	T	T	A	rs62648104	bycluster	TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	366.0	26.0	354.0	0.0	0.0710383	0	T|0.024;A|0.976	0.976	weak	.	NRD1	89	.	NM_001101662	exon2	c.A449T	p.E150V	TCTTCCTCCACCT	.	PASS	Atlas-SNP
LTB	4050	hgsc.bcm.edu	37	6	31549350	31549350	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	123.0	19.0	120.0	0.0	0.154472	0	.	.	none	.	LTB	19	.	NM_002341	exon3	c.C266T	p.A89V	TGGGCAGCTGGGA	.	PASS	Atlas-SNP
SLC27A6	28965	hgsc.bcm.edu	37	5	128301873	128301873	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	234.0	31.0	195.0	0.0	0.132479	0	.	.	none	.	SLC27A6	112	.	NM_001017372	exon1	c.G43A	p.V15I	ATGGTCGTCCTGC	.	PASS	Atlas-SNP
SLC7A14	57709	hgsc.bcm.edu	37	3	170198934	170198934	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TX-01A-11D-A382-10	TCGA-GS-A9TX-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	c4c499f3-91c4-400e-9d4c-34cc4ba25efd	5d6e6d97-dba3-4087-ba36-3840e5b33520	49.0	7.0	39.0	0.0	0.142857	0	.	.	none	.	SLC7A14	110	.	NM_020949	exon7	c.C1137T	p.S379S	TGTGTAGGAGCTG	.	PASS	Atlas-SNP