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	COSMIC_Codon	COSMIC_Gene	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	TTotCov	TVarCov	NTotCov	NVarCov	dbSNPPopFreq	Algorithm
OPN4	94233	hgsc.bcm.edu	37	10	88419681	88419681	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	OPN4-69	NM_001030015	exon7	c.G863A	p.G288D	GCAAGGGCAATGG	.	174.0	12.0	163.0	0.0	.	Atlas-SNP
DNAJC4	3338	hgsc.bcm.edu	37	11	64001585	64001585	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	DNAJC4-226	NM_005528	exon7	c.G655T	p.G219W	CGGCTAGGGCAGC	.	54.0	7.0	60.0	0.0	.	Atlas-SNP
ABHD4	63874	hgsc.bcm.edu	37	14	23078809	23078809	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	ABHD4-90	NM_022060	exon6	c.G932A	p.R311Q	ATGTCCGAGACAT	.	80.0	4.0	40.0	0.0	.	Atlas-SNP
C15orf27	123591	hgsc.bcm.edu	37	15	76467904	76467904	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	C15orf27-90	NM_152335	exon8	c.656delA	p.Y219fs	.	.	192.0	76.0	168.0	0.0	.	Atlas-Indel
SCARF1	8578	hgsc.bcm.edu	37	17	1543262	1543262	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	SCARF1-91	NM_145350	exon6	c.G1083A	p.G361G	ACAGGACCCCTGA	.	195.0	64.0	133.0	0.0	.	Atlas-SNP
NOL11	25926	hgsc.bcm.edu	37	17	65734087	65734087	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	NOL11-90	NM_015462	exon13	c.A1528C	p.S510R	TTCTTGAGGTAAG	.	58.0	26.0	52.0	0.0	.	Atlas-SNP
WDR7	23335	hgsc.bcm.edu	37	18	54348602	54348602	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	WDR7-93	NM_015285	exon4	c.T325C	p.C109R	TTAGCTTGCACAC	.	196.0	49.0	156.0	0.0	.	Atlas-SNP
THOP1	7064	hgsc.bcm.edu	37	19	2790453	2790453	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	THOP1-92	NM_003249	exon2	c.G51A	p.P17P	ATCTCCGTGCTCT	.	93.0	50.0	100.0	0.0	.	Atlas-SNP
ANKRD24	170961	hgsc.bcm.edu	37	19	4210319	4210319	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	ANKRD24-68	NM_133475	exon13	c.C1009T	p.L337L	CGCCTCCTGCAGA	.	411.0	171.0	426.0	0.0	.	Atlas-SNP
LYPD3	27076	hgsc.bcm.edu	37	19	43968541	43968541	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	LYPD3-91	NM_014400	exon2	c.G147T	p.M49I	TGTCTTCATCTTG	.	207.0	29.0	99.0	0.0	.	Atlas-SNP
PTCHD2	57540	hgsc.bcm.edu	37	1	11561526	11561526	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	PTCHD2-209	NM_020780	exon2	c.G477A	p.L159L	GCAGCTGCATCTC	.	22.0	8.0	38.0	0.0	.	Atlas-SNP
VPS13D	55187	hgsc.bcm.edu	37	1	12309384	12309384	+	Silent	SNP	T	T	G	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	VPS13D-95	NM_018156	exon6	c.T552G	p.A184A	AAATGCTGTGAAT	.	127.0	48.0	65.0	0.0	.	Atlas-SNP
PHC2	1912	hgsc.bcm.edu	37	1	33820015	33820015	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	PHC2-227	NM_198040	exon8	c.G1542A	p.P514P	TGGGGACGGCTGG	.	123.0	55.0	81.0	0.0	.	Atlas-SNP
LCE1A	353131	hgsc.bcm.edu	37	1	152800122	152800122	+	Silent	SNP	C	C	T	rs148143373	byfrequency	TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	LCE1A-70	NM_178348	exon1	c.C174T	p.G58G	TGGGGGCGGCTGC	.	73.0	8.0	73.0	0.0	C|1.000;T|0.000	Atlas-SNP
LCE1B	353132	hgsc.bcm.edu	37	1	152785074	152785097	+	In_Frame_Del	DEL	GCTGTGGCTCCAGCTCTGGGGGAA	GCTGTGGCTCCAGCTCTGGGGGAA	-	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	GCTGTGGCTCCAGCTCTGGGGGAA	GCTGTGGCTCCAGCTCTGGGGGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	LCE1B-68	NM_178349	exon1	c.151_174del	p.51_58del	.	.	103.0	22.0	105.0	0.0	.	Atlas-Indel
SMOX	54498	hgsc.bcm.edu	37	20	4162847	4162847	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	SMOX-153	NM_175840	exon5	c.C721T	p.R241W	TTCATGCGGGTTG	.	65.0	4.0	63.0	0.0	.	Atlas-SNP
RBL1	5933	hgsc.bcm.edu	37	20	35696518	35696518	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	RBL1-419	NM_002895	exon3	c.G362A	p.R121H	TCTATACGTTCAC	.	51.0	4.0	50.0	0.0	.	Atlas-SNP
DNMT3A	1788	hgsc.bcm.edu	37	2	25505395	25505395	+	Silent	SNP	T	T	A	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	DNMT3A-1924	NM_175629	exon4	c.A363T	p.A121A	CTCAGCTGCACCC	.	61.0	27.0	71.0	0.0	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179501161	179501161	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	TTN-636	NM_001267550	exon225	c.A41293G	p.K13765E	TTTCTTTGTTTCC	.	105.0	49.0	112.0	0.0	.	Atlas-SNP
TMEM40	55287	hgsc.bcm.edu	37	3	12779634	12779634	+	Splice_Site	SNP	C	C	G	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	TMEM40-90	NM_018306	exon8	c.424+1G>C	.	TATTTACCACTTG	.	147.0	60.0	127.0	0.0	.	Atlas-SNP
TRAK1	22906	hgsc.bcm.edu	37	3	42265106	42265106	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	TRAK1-91	NM_001042646	exon16	c.C2739T	p.G913G	TAGTGGCATCCGG	.	161.0	72.0	188.0	0.0	.	Atlas-SNP
SCFD2	152579	hgsc.bcm.edu	37	4	54231383	54231383	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	SCFD2-93	NM_152540	exon1	c.A726C	p.L242F	CTGACTTAAGGAA	.	159.0	76.0	144.0	0.0	.	Atlas-SNP
ANK2	287	hgsc.bcm.edu	37	4	114277261	114277261	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	ANK2-583	NM_001148	exon38	c.C7487G	p.T2496R	CCAAAACAGAACT	.	75.0	28.0	70.0	0.0	.	Atlas-SNP
TACR3	6870	hgsc.bcm.edu	37	4	104640739	104640739	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	TACR3-525	NM_001059	exon1	c.95delC	p.A32fs	.	.	39.0	14.0	84.0	0.0	.	Atlas-Indel
TRAM1L1	133022	hgsc.bcm.edu	37	4	118006510	118006519	+	Frame_Shift_Del	DEL	GAACGGGGGG	GAACGGGGGG	-	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	GAACGGGGGG	GAACGGGGGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	TRAM1L1-90	NM_152402	exon1	c.32_41del	p.11_14del	.	.	106.0	29.0	108.0	0.0	.	Atlas-Indel
KLHL3	26249	hgsc.bcm.edu	37	5	136973018	136973018	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	KLHL3-90	NM_001257194	exon11	c.C1190T	p.T397M	CGCCGCGTGTTCA	.	178.0	82.0	142.0	0.0	.	Atlas-SNP
GABRA1	2554	hgsc.bcm.edu	37	5	161300197	161300197	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	GABRA1-93	NM_001127643	exon6	c.C330T	p.V110V	GACAGTCCTCCGG	.	72.0	8.0	90.0	0.0	.	Atlas-SNP
HIST1H3B	8358	hgsc.bcm.edu	37	6	26031919	26031919	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	HIST1H3B-92	NM_003537	exon1	c.G370C	p.D124H	GGATGTCTTTGGG	.	128.0	51.0	111.0	0.0	.	Atlas-SNP
DDO	8528	hgsc.bcm.edu	37	6	110714258	110714258	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	DDO-155	NM_003649	exon5	c.A830C	p.E277A	CTATTTTCTGCAT	.	100.0	50.0	98.0	0.0	.	Atlas-SNP
RBM28	55131	hgsc.bcm.edu	37	7	127954955	127954955	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	RBM28-92	NM_001166135	exon13	c.C1484T	p.P495L	TGCTCTGGGGGCA	.	178.0	63.0	153.0	0.0	.	Atlas-SNP
KCNH2	3757	hgsc.bcm.edu	37	7	150647026	150647026	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	KCNH2-94	NM_172056	exon9	c.G2628C	p.R876S	GCGGATCCTGAAG	.	107.0	34.0	152.0	0.0	.	Atlas-SNP
NTMT1	28989	hgsc.bcm.edu	37	9	132395087	132395087	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	.	NM_014064	exon2	c.C105T	p.G35G	GTATGGCCACATC	.	175.0	71.0	178.0	0.0	.	Atlas-SNP
BEX5	340542	hgsc.bcm.edu	37	X	101409174	101409174	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	BEX5-86	NM_001159560	exon3	c.G64A	p.A22T	CTAAAGCGGGGGC	.	31.0	27.0	52.0	0.0	.	Atlas-SNP
F8	2157	hgsc.bcm.edu	37	X	154157135	154157135	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5J1-01A-11D-A29I-10	TCGA-OR-A5J1-10A-01D-A29L-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	352062e7-9b06-41cd-880c-38fe268c9bf3	1d288ab9-ab2d-4483-af84-f5d0f5837cda	.	F8-182	NM_000132	exon14	c.A4930G	p.T1644A	CCCAGGTGACTTC	.	55.0	5.0	66.0	0.0	.	Atlas-SNP
