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	COSMIC_Gene_Freq	COSMIC_Site_Freq	dbSNP_AF	Algorithm
KIAA0754	643314	hgsc.bcm.edu	hg19	1	39876450	39876450	+	Silent	SNP	C	C	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	KIAA0754	NM_015038	exon1	c.C513T	p.S171S	GGAGTCCAGTTCT	.	159.0	109.0	241.0	1.0	.	93	.	.	Atlas-SNP
CEPT1	10390	hgsc.bcm.edu	hg19	1	111702018	111702018	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	CEPT1	NM_006090	exon3	c.A356G	p.Y119C	GGGCATATATTGC	.	52.0	4.0	82.0	0.0	.	25	.	.	Atlas-SNP
KCNN3	3782	hgsc.bcm.edu	hg19	1	154842253	154842253	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	KCNN3	NM_001204087	exon1	c.C188A	p.P63H	TGCGGAGGCTGAG	.	105.0	15.0	56.0	0.0	.	141	.	.	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	hg19	1	228509374	228509374	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	OBSCN	NM_001271223	exon66	c.T17703A	p.H5901Q	GCACCATCACATC	.	114.0	36.0	80.0	0.0	.	2142	.	.	Atlas-SNP
HS1BP3	64342	hgsc.bcm.edu	hg19	2	20838354	20838354	+	Silent	SNP	G	G	A	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	HS1BP3	NM_022460	exon4	c.C465T	p.G155G	GTCTGTGCCATCC	.	69.0	30.0	62.0	0.0	.	33	.	.	Atlas-SNP
TMEM214	54867	hgsc.bcm.edu	hg19	2	27257068	27257068	+	Silent	SNP	G	G	A	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	TMEM214	NM_017727	exon2	c.G285A	p.V95V	GAAGGTGGCAACT	.	214.0	91.0	235.0	0.0	.	41	.	.	Atlas-SNP
TGOLN2	10618	hgsc.bcm.edu	hg19	2	85554487	85554487	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	TGOLN2	NM_001206841	exon2	c.C368G	p.T123S	TTACTAGTGCTGT	.	170.0	66.0	132.0	0.0	.	32	.	.	Atlas-SNP
POLR1A	25885	hgsc.bcm.edu	hg19	2	86260785	86260785	+	Missense_Mutation	SNP	C	C	G	rs78239085	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	POLR1A	NM_015425	exon28	c.G4160C	p.R1387P	CTCACCCGACTCC	.	94.0	41.0	88.0	0.0	.	137	.	C|0.978;T|0.022	Atlas-SNP
SCN9A	6335	hgsc.bcm.edu	hg19	2	167089924	167089924	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	SCN9A	NM_002977	exon21	c.G3817A	p.G1273S	TGGGGCCAAGATC	.	97.0	25.0	75.0	0.0	.	296	.	.	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	hg19	2	170058314	170058314	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	LRP2	NM_004525	exon44	c.G8276T	p.R2759L	TCACAGCGGTAAG	.	46.0	17.0	61.0	0.0	.	751	.	.	Atlas-SNP
SLC4A3	6508	hgsc.bcm.edu	hg19	2	220500504	220500504	+	Silent	SNP	G	G	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	SLC4A3	NM_201574	exon14	c.G2163T	p.P721P	GTACCCGCACTAC	.	99.0	4.0	94.0	0.0	.	144	.	.	Atlas-SNP
CTNNB1	1499	hgsc.bcm.edu	hg19	3	41266105	41266105	+	Silent	SNP	A	A	G	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	CTNNB1,gallbladder,other,+1,1	CTNNB1	NM_001098209	exon3	c.A102G	p.G34G	CTCTGGAATCCAT	.	33.0	15.0	154.0	1.0	.	4904	.	.	Atlas-SNP
PBRM1	55193	hgsc.bcm.edu	hg19	3	52598082	52598082	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	PBRM1_ENST00000296302,NS,carcinoma,+2,2	PBRM1	NM_018313	exon24	c.G3784A	p.E1262K	AAATTTCATCATC	.	37.0	26.0	54.0	1.0	.	1252	.	.	Atlas-SNP
STPG2	285555	hgsc.bcm.edu	hg19	4	98902341	98902341	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	.	NM_174952	exon6	c.C741G	p.F247L	CTGTGTGAATCGA	.	39.0	6.0	78.0	0.0	.	.	.	.	Atlas-SNP
SKIV2L2	23517	hgsc.bcm.edu	hg19	5	54693274	54693274	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	SKIV2L2	NM_015360	exon20	c.G2212T	p.A738S	CTGTCTGCTATCA	.	83.0	4.0	82.0	0.0	.	104	.	.	Atlas-SNP
YTHDC2	64848	hgsc.bcm.edu	hg19	5	112891817	112891817	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	YTHDC2	NM_022828	exon17	c.A2202G	p.I734M	TGCCATACAGCGG	.	276.0	63.0	168.0	0.0	.	118	.	.	Atlas-SNP
RNF44	22838	hgsc.bcm.edu	hg19	5	175959076	175959076	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	RNF44	NM_014901	exon3	c.G226T	p.A76S	CGCCGGCAGGAGC	.	276.0	83.0	219.0	0.0	.	33	.	.	Atlas-SNP
MYLK4	340156	hgsc.bcm.edu	hg19	6	2678490	2678490	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	MYLK4	NM_001012418	exon10	c.A1004C	p.K335T	AACTCCTTGGCCT	.	95.0	33.0	100.0	0.0	.	74	.	.	Atlas-SNP
REV3L	5980	hgsc.bcm.edu	hg19	6	111714108	111714108	+	Silent	SNP	T	T	C	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	REV3L	NM_002912	exon5	c.A633G	p.L211L	CCGAAATAAAGTA	.	69.0	29.0	91.0	0.0	.	386	.	.	Atlas-SNP
AMZ1	155185	hgsc.bcm.edu	hg19	7	2752261	2752261	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	AMZ1	NM_133463	exon7	c.C1246A	p.Q416K	TGCATCCAGGCCC	.	142.0	47.0	80.0	0.0	.	41	.	.	Atlas-SNP
NME8	51314	hgsc.bcm.edu	hg19	7	37903054	37903054	+	Silent	SNP	T	T	C	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	.	NM_016616	exon8	c.T444C	p.C148C	ACCATGTGAAAGT	.	55.0	25.0	63.0	0.0	.	.	.	.	Atlas-SNP
HIPK2	28996	hgsc.bcm.edu	hg19	7	139281611	139281611	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	HIPK2	NM_022740	exon12	c.T2569A	p.C857S	ACCCACAGGTGAC	.	58.0	30.0	55.0	0.0	.	192	.	.	Atlas-SNP
ATP6V0E2	155066	hgsc.bcm.edu	hg19	7	149571165	149571165	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	ATP6V0E2	NM_001100592	exon1	c.A158G	p.H53R	CGGCGCACTCATT	.	105.0	46.0	105.0	0.0	.	12	.	.	Atlas-SNP
DLGAP2	9228	hgsc.bcm.edu	hg19	8	1616621	1616621	+	Missense_Mutation	SNP	G	G	A	rs200214556	bycluster	TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	DLGAP2	NM_004745	exon6	c.G1697A	p.R566H	ACAGCCGCGCACA	.	138.0	6.0	217.0	0.0	.	292	.	.	Atlas-SNP
HR	55806	hgsc.bcm.edu	hg19	8	21984727	21984727	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	HR	NM_018411	exon3	c.G1228T	p.A410S	TGAGGGCCCGGAG	.	49.0	35.0	53.0	0.0	.	71	.	.	Atlas-SNP
JRK	8629	hgsc.bcm.edu	hg19	8	143746089	143746089	+	Splice_Site	SNP	A	A	C	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	.	NM_001077527	exon3	c.1388+1T>G	.	AACTCCACACACA	.	8.0	4.0	5.0	0.0	.	.	.	.	Atlas-SNP
CYP11B2	1585	hgsc.bcm.edu	hg19	8	143996509	143996509	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	CYP11B2	NM_000498	exon3	c.G548A	p.S183N	GTCAGGCTCCCCC	.	132.0	61.0	143.0	0.0	.	107	.	.	Atlas-SNP
C5	727	hgsc.bcm.edu	hg19	9	123777539	123777539	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	C5	NM_001735	exon16	c.A1997G	p.D666G	GGTTCATCTGGTT	.	34.0	10.0	35.0	0.0	.	124	.	.	Atlas-SNP
C9orf139	401563	hgsc.bcm.edu	hg19	9	139927656	139927656	+	Silent	SNP	C	C	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	C9orf139	NM_207511	exon2	c.C141T	p.D47D	GCCAGACCCAGAC	.	80.0	31.0	88.0	0.0	.	12	.	.	Atlas-SNP
TTC18	118491	hgsc.bcm.edu	hg19	10	75071614	75071614	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	TTC18	NM_145170	exon12	c.T1352A	p.L451Q	TGACTTAGAGGGG	.	97.0	41.0	91.0	0.0	.	106	.	.	Atlas-SNP
ERC1	23085	hgsc.bcm.edu	hg19	12	1192720	1192720	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	ERC1	NM_178039	exon3	c.G1060A	p.E354K	CAGAAGGAAAAAG	.	82.0	32.0	80.0	0.0	.	95	.	.	Atlas-SNP
KLRC4	8302	hgsc.bcm.edu	hg19	12	10560370	10560370	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	KLRC4	NM_013431	exon4	c.G359A	p.C120Y	TCAGGACAATGGC	.	181.0	75.0	232.0	0.0	.	23	.	.	Atlas-SNP
RERG	85004	hgsc.bcm.edu	hg19	12	15262379	15262379	+	Silent	SNP	G	G	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	RERG	NM_032918	exon5	c.C265A	p.R89R	TTCCTCGGTCAGT	.	113.0	5.0	130.0	0.0	.	30	.	.	Atlas-SNP
DCD	117159	hgsc.bcm.edu	hg19	12	55038527	55038527	+	Silent	SNP	G	G	A	rs373661792		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	DCD	NM_053283	exon5	c.C303T	p.D101D	TTTAACGTCATGG	.	373.0	159.0	448.0	1.0	.	20	.	.	Atlas-SNP
HECTD4	283450	hgsc.bcm.edu	hg19	12	112673432	112673432	+	Silent	SNP	G	G	A	rs373022791		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	.	NM_001109662	exon36	c.C5199T	p.N1733N	CTCCACGTTTCCA	.	115.0	43.0	110.0	0.0	.	.	.	.	Atlas-SNP
GALNT9	50614	hgsc.bcm.edu	hg19	12	132685703	132685703	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	GALNT9	NM_001122636	exon8	c.T1367C	p.M456T	ACCCTCATCTCCG	.	50.0	21.0	94.0	0.0	.	74	.	.	Atlas-SNP
NPAS3	64067	hgsc.bcm.edu	hg19	14	34269678	34269678	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	NPAS3	NM_001164749	exon12	c.A2165T	p.D722V	GCGCCGACGGCGC	.	42.0	16.0	37.0	0.0	.	266	.	.	Atlas-SNP
SPATA7	55812	hgsc.bcm.edu	hg19	14	88857757	88857757	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	SPATA7	NM_018418	exon2	c.C52G	p.P18A	TATGGTCCACCGT	.	69.0	28.0	72.0	0.0	.	58	.	.	Atlas-SNP
IL21R	50615	hgsc.bcm.edu	hg19	16	27460045	27460045	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	IL21R	NM_181079	exon10	c.C1124T	p.P375L	TCTGGCCGACAGC	.	133.0	10.0	167.0	0.0	.	95	.	.	Atlas-SNP
PLEKHG4	25894	hgsc.bcm.edu	hg19	16	67319052	67319052	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	PLEKHG4	NM_001129728	exon13	c.G2129A	p.G710D	GAGGAGGTGCCCT	.	55.0	21.0	39.0	0.0	.	94	.	.	Atlas-SNP
ZNF397	84307	hgsc.bcm.edu	hg19	18	32823230	32823230	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	ZNF397	NM_032347	exon3	c.T529A	p.W177R	AAATCCTGGAAAC	.	109.0	44.0	120.0	0.0	.	51	.	.	Atlas-SNP
DNMT1	1786	hgsc.bcm.edu	hg19	19	10248604	10248604	+	Silent	SNP	T	T	G	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	DNMT1	NM_001130823	exon36	c.A4197C	p.A1399A	CTCCAGTGCCGAG	.	99.0	39.0	56.0	0.0	.	148	.	.	Atlas-SNP
IL12RB1	3594	hgsc.bcm.edu	hg19	19	18174687	18174687	+	Silent	SNP	G	G	A	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	IL12RB1_ENST00000430026,colon,carcinoma,0,1	IL12RB1	NM_005535	exon13	c.C1617T	p.I539I	CTCACCGATGCTG	.	61.0	20.0	60.0	0.0	.	92	.	.	Atlas-SNP
LGALS7B	653499	hgsc.bcm.edu	hg19	19	39281456	39281456	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	.	NM_001042507	exon3	c.C223T	p.R75C	GAGGAGCGCGGGC	.	381.0	122.0	358.0	0.0	.	.	.	.	Atlas-SNP
SPTBN4	57731	hgsc.bcm.edu	hg19	19	41078287	41078287	+	Splice_Site	SNP	G	G	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	SPTBN4	NM_020971	exon35	c.7536+1G>T	.	GATGAGGTGAGAT	.	79.0	20.0	74.0	0.0	.	213	.	.	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	hg19	22	29885570	29885570	+	Missense_Mutation	SNP	G	G	T	rs200634512	bycluster;by1000genomes;alternate_allele	TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	NEFH	NM_021076	exon4	c.G1941T	p.K647N	AGCAAAGTCCCCT	.	209.0	32.0	195.0	0.0	.	178	.	G|0.999;C|0.001	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	hg19	22	29885588	29885588	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	NEFH	NM_021076	exon4	c.G1959T	p.K653N	GGCCAAGTCCCCA	.	236.0	24.0	215.0	0.0	.	178	.	.	Atlas-SNP
MYH9	4627	hgsc.bcm.edu	hg19	22	36702652	36702652	+	Silent	SNP	C	C	T	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	MYH9	NM_002473	exon16	c.G1845A	p.V615V	GCGGTCCACTGTG	.	59.0	24.0	51.0	0.0	.	225	.	.	Atlas-SNP
ND2	0	hgsc.bcm.edu	hg19	MT	4482	4482	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	.	ENST00000361453	exon1	c.G13A	p.A5T	CCCCTGGCCCAAC	.	43.0	9.0	22.0	0.0	.	.	.	.	Atlas-SNP
ND2	0	hgsc.bcm.edu	hg19	MT	4920	4920	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	.	ENST00000361453	exon1	c.G451A	p.V151M	CTAAACGTAAGCC	.	36.0	25.0	30.0	0.0	.	.	.	.	Atlas-SNP
CCDC104	112942	hgsc.bcm.edu	hg19	2	55771427	55771427	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	CCDC104	NM_080667	exon9	c.848delT	p.L283X	.	.	302.0	110.0	337.0	0.0	.	35	.	.	Atlas-INDEL
SYVN1	84447	hgsc.bcm.edu	hg19	11	64898172	64898173	+	In_Frame_Ins	INS	-	-	GGG	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	SYVN1	NM_032431	exon11	c.1065_1066insCCC	p.P355delinsPP	.	.	44.0	19.0	20.0	0.0	.	55	.	.	Atlas-INDEL
ZNF687	57592	hgsc.bcm.edu	hg19	1	151259173	151259173	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	ZNF687	NM_020832	exon2	c.405delA	p.P135fs	.	.	99.0	32.0	72.0	0.0	.	94	.	.	Atlas-INDEL
SRSF5	6430	hgsc.bcm.edu	hg19	14	70238105	70238106	+	Frame_Shift_Ins	INS	-	-	GTCTCCAGCATCTGTGG	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	SRSF5	NM_001039465	exon8	c.746_747insGTCTCCAGCATCTGTGG	p.K249fs	.	.	92.0	18.0	114.0	0.0	.	45	.	.	Atlas-INDEL
TERF2IP	54386	hgsc.bcm.edu	hg19	16	75681935	75681948	+	Frame_Shift_Del	DEL	CCGTGTGCCGAGTG	CCGTGTGCCGAGTG	-	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	CCGTGTGCCGAGTG	CCGTGTGCCGAGTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	TERF2IP	NM_018975	exon1	c.154_167del	p.52_56del	.	.	63.0	23.0	66.0	0.0	.	17	.	.	Atlas-INDEL
ADAMTSL3	57188	hgsc.bcm.edu	hg19	15	84639347	84639347	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-LG-A9QC-01A-11D-A36X-10	TCGA-LG-A9QC-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	80c45b60-c7e2-456d-aa46-4fb7269b9181	d9d44786-28b8-44ec-b915-1e0bbc537b27	.	ADAMTSL3	NM_207517	exon20	c.2601delA	p.P867fs	.	.	82.0	31.0	90.0	0.0	.	290	.	.	Atlas-INDEL