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	TVarRat	NVarRat	dbSNP_Strength	dbSNP_AF	dbSNP_PopFreq	Confidence	Algorithm
AGRN	375790	hgsc.bcm.edu	hg19	1	984390	984390	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	AGRN	NM_198576	exon24	c.G4249T	p.G1417C	GCCCGGGGCAAGG	.	100.0	27.0	194.0	0.0	.	110	.	.	.	none	.	.	PASS	Atlas-SNP
KIF1B	23095	hgsc.bcm.edu	hg19	1	10394605	10394605	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	KIF1B	NM_015074	exon26	c.G2814A	p.L938L	TCTGCTGTATCCC	.	81.0	33.0	90.0	0.0	.	242	.	.	.	none	.	.	PASS	Atlas-SNP
PEX14	5195	hgsc.bcm.edu	hg19	1	10596271	10596271	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	PEX14	NM_004565	exon3	c.T86G	p.I29S	ACCAGATTGCCAC	.	226.0	87.0	336.0	1.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
GJA4	2701	hgsc.bcm.edu	hg19	1	35260710	35260710	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	GJA4	NM_002060	exon2	c.G896C	p.R299T	AGGAGAGGCTGGC	.	40.0	15.0	47.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
SLFNL1	200172	hgsc.bcm.edu	hg19	1	41486067	41486067	+	Missense_Mutation	SNP	G	G	T	rs189387361	bycluster;by1000genomes;alternate_allele	TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	SLFNL1	NM_001168247	exon3	c.C266A	p.P89Q	TTCCGCGGCCGCC	.	33.0	9.0	50.0	0.0	.	37	.	.	.	alt	G|0.999;A|0.001	.	PASS	Atlas-SNP
SZT2	23334	hgsc.bcm.edu	hg19	1	43896443	43896443	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	SZT2	NM_015284	exon31	c.G4586C	p.S1529T	TGTGCAGCCTGCC	.	39.0	14.0	29.0	0.0	.	383	.	.	.	none	.	.	PASS	Atlas-SNP
ZCCHC11	23318	hgsc.bcm.edu	hg19	1	52941009	52941009	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	ZCCHC11	NM_001009881	exon13	c.T2222G	p.M741R	GTTGCCATATTGT	.	63.0	10.0	90.0	0.0	.	151	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGAP29	9411	hgsc.bcm.edu	hg19	1	94650461	94650461	+	Silent	SNP	G	G	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	ARHGAP29	NM_004815	exon18	c.C2076A	p.A692A	CTCTGAGGCACAT	.	90.0	11.0	69.0	0.0	.	132	.	.	.	none	.	.	PASS	Atlas-SNP
SASS6	163786	hgsc.bcm.edu	hg19	1	100573433	100573433	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	SASS6	NM_194292	exon9	c.A989T	p.E330V	TTGATTTCCTGTT	.	64.0	23.0	84.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
IGSF9	57549	hgsc.bcm.edu	hg19	1	159912854	159912854	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	IGSF9	NM_001135050	exon3	c.G146A	p.R49Q	GGGGGCCGGCCGG	.	188.0	12.0	200.0	0.0	.	123	.	.	.	none	.	.	PASS	Atlas-SNP
SLC9C2	284525	hgsc.bcm.edu	hg19	1	173503688	173503688	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	.	NM_178527	exon16	c.G1909A	p.V637I	CTGATACATTTAA	.	457.0	218.0	320.0	1.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1614	57710	hgsc.bcm.edu	hg19	1	180882414	180882414	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	KIAA1614	NM_020950	exon1	c.C35T	p.A12V	AACCCGCGGGCGG	.	181.0	50.0	236.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
NFASC	23114	hgsc.bcm.edu	hg19	1	204955212	204955212	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	NFASC	NM_001160331	exon21	c.G2794A	p.E932K	CGCAGTGAGACCA	.	108.0	15.0	136.0	0.0	.	396	.	.	.	none	.	.	PASS	Atlas-SNP
LCLAT1	253558	hgsc.bcm.edu	hg19	2	30863435	30863435	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	LCLAT1	NM_182551	exon7	c.T1195A	p.Y399N	GCATGTTACCGAC	.	97.0	10.0	92.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM17	200728	hgsc.bcm.edu	hg19	2	62729639	62729639	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	TMEM17	NM_198276	exon3	c.T251C	p.I84T	AGGATGATAACAG	.	137.0	9.0	162.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
KDM3A	55818	hgsc.bcm.edu	hg19	2	86669203	86669203	+	Silent	SNP	A	A	G	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	KDM3A	NM_001146688	exon2	c.A33G	p.V11V	GCCGGTATTGGTG	.	51.0	10.0	71.0	0.0	.	179	.	.	.	none	.	.	PASS	Atlas-SNP
CNTNAP5	129684	hgsc.bcm.edu	hg19	2	125405359	125405359	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	CNTNAP5	NM_130773	exon13	c.A1898T	p.Q633L	CAGTGCAGCACAA	.	187.0	14.0	196.0	0.0	.	405	.	.	.	none	.	.	PASS	Atlas-SNP
MAP3K19	80122	hgsc.bcm.edu	hg19	2	135738784	135738784	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	.	NM_025052	exon9	c.A3527G	p.Y1176C	TGGAGATAAGCAA	.	70.0	26.0	55.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179396967	179396967	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	TTN	NM_001267550	exon358	c.T104375G	p.F34792C	GACATGAAGTCAA	.	32.0	9.0	31.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
XRCC5	7520	hgsc.bcm.edu	hg19	2	216982471	216982471	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	XRCC5	NM_021141	exon4	c.C322A	p.L108M	TGAGTCCTGGATG	.	71.0	20.0	55.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
SH3BP4	23677	hgsc.bcm.edu	hg19	2	235950616	235950616	+	Silent	SNP	A	A	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	SH3BP4	NM_014521	exon4	c.A1203T	p.I401I	CGAGATAAAAAAT	.	68.0	19.0	78.0	0.0	.	109	.	.	.	none	.	.	PASS	Atlas-SNP
DLEC1	9940	hgsc.bcm.edu	hg19	3	38158502	38158502	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	DLEC1	NM_007337	exon30	c.T4216C	p.S1406P	TACATCTCCTTCA	.	32.0	10.0	59.0	0.0	.	278	.	.	.	none	.	.	PASS	Atlas-SNP
BAP1	8314	hgsc.bcm.edu	hg19	3	52443600	52443600	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	BAP1,NS,carcinoma,0,2	BAP1	NM_004656	exon3	c.A92G	p.E31G	TAGATCTCCTCCA	.	53.0	21.0	142.0	0.0	.	371	.	.	.	none	.	.	PASS	Atlas-SNP
ITIH1	3697	hgsc.bcm.edu	hg19	3	52813055	52813055	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	ITIH1	NM_002215	exon4	c.C403A	p.L135I	GCCGGCCTTGTCA	.	24.0	6.0	54.0	0.0	.	108	.	.	.	none	.	.	PASS	Atlas-SNP
ERC2	26059	hgsc.bcm.edu	hg19	3	55768866	55768866	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	ERC2	NM_015576	exon14	c.A2639G	p.K880R	TGCGTCTTTTTCT	.	46.0	4.0	49.0	0.0	.	221	.	.	.	none	.	.	PASS	Atlas-SNP
WDR52	55779	hgsc.bcm.edu	hg19	3	113125861	113125861	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	WDR52	NM_001164496	exon8	c.C918T	p.T306T	GAGACCGGTGAAC	.	150.0	28.0	101.0	0.0	.	151	.	.	.	none	.	.	PASS	Atlas-SNP
OTOL1	131149	hgsc.bcm.edu	hg19	3	161220933	161220933	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	OTOL1	NM_001080440	exon4	c.G637A	p.A213T	CAAGGGGCTATGG	.	280.0	68.0	135.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
BCL6	604	hgsc.bcm.edu	hg19	3	187446278	187446278	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	BCL6	NM_001134738	exon5	c.G1410T	p.M470I	GGGGTGCATGTAG	.	71.0	35.0	53.0	0.0	.	107	.	.	.	none	.	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	hg19	3	195492266	195492266	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	MUC4_ENST00000463781,NS,carcinoma,0,3	MUC4	NM_018406	exon9	c.G13673A	p.R4558H	TCGAGACGGTAGT	.	77.0	4.0	110.0	0.0	.	1505	.	.	.	none	.	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	hg19	3	195511408	195511408	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	MUC4	NM_018406	exon2	c.G7043A	p.G2348D	GCGTGACCTGTGG	.	114.0	9.0	100.0	0.0	.	1505	.	.	.	none	.	.	PASS	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	hg19	5	90012405	90012405	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	GPR98	NM_032119	exon43	c.C9306A	p.Y3102X	ATTGTACATTGTT	.	138.0	16.0	136.0	0.0	.	605	.	.	.	none	.	.	PASS	Atlas-SNP
MCC	4163	hgsc.bcm.edu	hg19	5	112420999	112420999	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	MCC	NM_001085377	exon9	c.G1407T	p.E469D	TTGAAGCTCTCTG	.	62.0	25.0	46.0	0.0	.	234	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHGB7	56099	hgsc.bcm.edu	hg19	5	140797588	140797588	+	Silent	SNP	A	A	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	PCDHGB7	NM_018927	exon1	c.A162C	p.L54L	GGATCTAGGGCTT	.	59.0	21.0	132.0	0.0	.	117	.	.	.	none	.	.	PASS	Atlas-SNP
SH3TC2	79628	hgsc.bcm.edu	hg19	5	148386485	148386485	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	SH3TC2	NM_024577	exon16	c.G3634C	p.V1212L	AATACACCTTGGC	.	112.0	26.0	126.0	0.0	.	178	.	.	.	none	.	.	PASS	Atlas-SNP
C2	717	hgsc.bcm.edu	hg19	6	31905164	31905164	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	C2	NM_000063	exon8	c.C1057A	p.Q353K	AACAACCAAATGC	.	83.0	24.0	113.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
AZGP1	563	hgsc.bcm.edu	hg19	7	99565822	99565822	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	AZGP1	NM_001185	exon3	c.T569A	p.L190Q	TTCCGCAGAGTCG	.	33.0	10.0	59.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
GPR37	2861	hgsc.bcm.edu	hg19	7	124387366	124387366	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	GPR37	NM_005302	exon2	c.T1055C	p.L352S	GCACATAAGGTGA	.	58.0	6.0	43.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM139	135932	hgsc.bcm.edu	hg19	7	142983223	142983223	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	TMEM139	NM_001242773	exon3	c.T173C	p.F58S	TCCGGTTTCTGGA	.	42.0	15.0	64.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
PDIA4	9601	hgsc.bcm.edu	hg19	7	148712027	148712027	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	PDIA4	NM_004911	exon4	c.G583T	p.D195Y	TGATATCTGCATC	.	80.0	16.0	93.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM176A	55365	hgsc.bcm.edu	hg19	7	150500886	150500886	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	TMEM176A	NM_018487	exon5	c.T521C	p.L174P	GAAGGCTACACCT	.	58.0	25.0	66.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
KIF13B	23303	hgsc.bcm.edu	hg19	8	29024953	29024953	+	Silent	SNP	G	G	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	KIF13B	NM_015254	exon11	c.C1095A	p.A365A	AATTCGGGCATTA	.	97.0	14.0	62.0	0.0	.	192	.	.	.	none	.	.	PASS	Atlas-SNP
KAT6A	7994	hgsc.bcm.edu	hg19	8	41906305	41906305	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	.	NM_001099412	exon3	c.C191A	p.S64X	TTATTTGAGACTT	.	116.0	27.0	105.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ZFHX4	79776	hgsc.bcm.edu	hg19	8	77776082	77776082	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	ZFHX4	NM_024721	exon11	c.A10132T	p.K3378X	AGCACAAAAGAAG	.	63.0	11.0	37.0	0.0	.	878	.	.	.	none	.	.	PASS	Atlas-SNP
RIMS2	9699	hgsc.bcm.edu	hg19	8	105257207	105257207	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	RIMS2	NM_001100117	exon20	c.A3398T	p.E1133V	CCGTGGAAATGAG	.	281.0	24.0	166.0	0.0	.	1357	.	.	.	none	.	.	PASS	Atlas-SNP
C9orf72	203228	hgsc.bcm.edu	hg19	9	27566893	27566893	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	C9orf72	NM_018325	exon2	c.G226A	p.E76K	CACTCTCTGCATT	.	114.0	37.0	97.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM2	23670	hgsc.bcm.edu	hg19	9	74345097	74345097	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	TMEM2	NM_013390	exon9	c.A1846G	p.T616A	ACAAAGTATTCCT	.	129.0	28.0	140.0	0.0	.	112	.	.	.	none	.	.	PASS	Atlas-SNP
PHF2	5253	hgsc.bcm.edu	hg19	9	96421819	96421819	+	Silent	SNP	C	C	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	PHF2	NM_005392	exon11	c.C1266T	p.L422L	CGAGCTCCCGGAG	.	159.0	47.0	248.0	0.0	.	113	.	.	.	none	.	.	PASS	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	hg19	10	17110184	17110184	+	Silent	SNP	A	A	G	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	CUBN	NM_001081	exon21	c.T2887C	p.L963L	GGACTAATATATG	.	138.0	52.0	100.0	0.0	.	515	.	.	.	none	.	.	PASS	Atlas-SNP
C10orf137	26098	hgsc.bcm.edu	hg19	10	127411636	127411636	+	Splice_Site	SNP	G	G	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	C10orf137	NM_001202438	exon3	c.318-1G>T	.	TTGGTAGCTTTGG	.	93.0	6.0	107.0	0.0	.	153	.	.	.	none	.	.	PASS	Atlas-SNP
OR51Q1	390061	hgsc.bcm.edu	hg19	11	5443619	5443619	+	Silent	SNP	G	G	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	OR51Q1	NM_001004757	exon1	c.G189T	p.L63L	GTATCTGTTTCTC	.	77.0	8.0	60.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
NLRP10	338322	hgsc.bcm.edu	hg19	11	7982378	7982378	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	NLRP10	NM_176821	exon2	c.A781C	p.K261Q	TCAACTTTTCTTC	.	66.0	23.0	73.0	0.0	.	146	.	.	.	none	.	.	PASS	Atlas-SNP
OR4C11	219429	hgsc.bcm.edu	hg19	11	55371658	55371658	+	Silent	SNP	C	C	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	OR4C11	NM_001004700	exon1	c.G192A	p.L64L	AAAGGACAAATAA	.	43.0	28.0	30.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
CD5	921	hgsc.bcm.edu	hg19	11	60891376	60891376	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	CD5	NM_014207	exon8	c.C1246T	p.Q416X	CAGCGCCAGTGGA	.	30.0	12.0	42.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
MED17	9440	hgsc.bcm.edu	hg19	11	93535078	93535078	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	MED17	NM_004268	exon9	c.A1406G	p.D469G	TCAATGATGTTTA	.	207.0	18.0	190.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
KCNA5	3741	hgsc.bcm.edu	hg19	12	5154784	5154784	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	KCNA5	NM_002234	exon1	c.G1471T	p.V491F	ATCACTGTTGGGG	.	90.0	18.0	112.0	0.0	.	138	.	.	.	none	.	.	PASS	Atlas-SNP
KCNH3	23416	hgsc.bcm.edu	hg19	12	49942732	49942732	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	KCNH3	NM_012284	exon8	c.G1244A	p.R415Q	TGGGCCGGAGGCC	.	87.0	22.0	99.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1033	23325	hgsc.bcm.edu	hg19	12	105538550	105538550	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	KIAA1033	NM_015275	exon22	c.T2234C	p.L745P	TAGCCCTTCATGA	.	91.0	48.0	75.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
SPATA13	221178	hgsc.bcm.edu	hg19	13	24797769	24797769	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	SPATA13	NM_001166271	exon2	c.G702A	p.V234V	CGCCGTGTGTGAG	.	42.0	13.0	70.0	0.0	.	92	.	.	.	none	.	.	PASS	Atlas-SNP
RTL1	388015	hgsc.bcm.edu	hg19	14	101347376	101347376	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	RTL1	NM_001134888	exon1	c.C3750T	p.D1250D	CAGGCCGTCATGC	.	79.0	9.0	116.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
DMXL2	23312	hgsc.bcm.edu	hg19	15	51799330	51799330	+	Splice_Site	SNP	C	C	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	DMXL2	NM_015263	exon17	c.2764+1G>A	.	TACTTACCTAAAC	.	37.0	11.0	55.0	0.0	.	262	.	.	.	none	.	.	PASS	Atlas-SNP
CNOT1	23019	hgsc.bcm.edu	hg19	16	58583738	58583738	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	CNOT1	NM_206999	exon25	c.T3407A	p.M1136K	CTCTTCATAACCA	.	106.0	27.0	66.0	0.0	.	359	.	.	.	none	.	.	PASS	Atlas-SNP
CNOT1	23019	hgsc.bcm.edu	hg19	16	58615281	58615281	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	CNOT1	NM_206999	exon11	c.A1183G	p.I395V	TATATATGAGGTC	.	123.0	46.0	115.0	0.0	.	359	.	.	.	none	.	.	PASS	Atlas-SNP
ABR	29	hgsc.bcm.edu	hg19	17	1082993	1082993	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	ABR	NM_021962	exon1	c.C29G	p.P10R	AGGCGCGGCAGGC	.	169.0	38.0	226.0	0.0	.	119	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH2	146754	hgsc.bcm.edu	hg19	17	7689641	7689641	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	DNAH2	NM_020877	exon39	c.C6329G	p.P2110R	GAGACCCTAACTT	.	36.0	23.0	47.0	0.0	.	498	.	.	.	none	.	.	PASS	Atlas-SNP
NCOR1	9611	hgsc.bcm.edu	hg19	17	15961343	15961343	+	Missense_Mutation	SNP	G	G	A	rs376750361	alternate_allele	TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	NCOR1	NM_006311	exon39	c.C6046T	p.H2016Y	GATAGTGATGTAA	.	78.0	11.0	84.0	0.0	.	240	.	.	.	alt	.	.	PASS	Atlas-SNP
CCDC103	388389	hgsc.bcm.edu	hg19	17	42979927	42979927	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	CCDC103	NM_001258395	exon4	c.G471A	p.P157P	GGGGCCGGCTGAC	.	99.0	20.0	102.0	0.0	.	15	.	.	.	none	.	.	PASS	Atlas-SNP
TEN1	100134934	hgsc.bcm.edu	hg19	17	73996327	73996327	+	Missense_Mutation	SNP	G	G	A	rs377039339		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	TEN1	NM_001113324	exon4	c.G356A	p.R119Q	AGGAGCGGGGCGG	.	92.0	45.0	110.0	0.0	.	4	.	.	.	weak	.	.	PASS	Atlas-SNP
MIDN	90007	hgsc.bcm.edu	hg19	19	1255611	1255611	+	Silent	SNP	T	T	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	MIDN	NM_177401	exon7	c.T1047C	p.T349T	CAGAACTACCTCC	.	67.0	25.0	136.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
SIRPA	140885	hgsc.bcm.edu	hg19	20	1903069	1903069	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	SIRPA	NM_001040022	exon5	c.G865C	p.E289Q	TGGTTGGAGAATG	.	278.0	18.0	394.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
RBM12	10137	hgsc.bcm.edu	hg19	20	34240509	34240509	+	Silent	SNP	A	A	G	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	RBM12	NM_001198840	exon2	c.T2736C	p.A912A	GACAGCAGCTGTG	.	71.0	10.0	97.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
BCR	613	hgsc.bcm.edu	hg19	22	23524065	23524065	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	BCR	NM_021574	exon1	c.G918T	p.E306D	GCAGGAGAAGCGC	.	19.0	11.0	25.0	0.0	.	74	.	.	.	none	.	.	PASS	Atlas-SNP
UPB1	51733	hgsc.bcm.edu	hg19	22	24896185	24896185	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	UPB1	NM_016327	exon2	c.T215C	p.V72A	GCATTGTGCACGT	.	59.0	14.0	59.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
RRP7A	27341	hgsc.bcm.edu	hg19	22	42912116	42912116	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	RRP7A	NM_015703	exon3	c.C243T	p.T81T	GCCACAGGTGGAC	.	68.0	14.0	126.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
PANX2	56666	hgsc.bcm.edu	hg19	22	50617455	50617455	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	PANX2	NM_052839	exon3	c.C1783A	p.P595T	TCACCTCCCGCCG	.	88.0	30.0	142.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
FAAH2	158584	hgsc.bcm.edu	hg19	X	57475117	57475117	+	Silent	SNP	C	C	G	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	FAAH2	NM_174912	exon10	c.C1389G	p.V463V	TCATGTCCCTCTA	.	69.0	35.0	96.0	0.0	.	66	.	.	.	none	.	.	PASS	Atlas-SNP
ZCCHC5	203430	hgsc.bcm.edu	hg19	X	77913324	77913324	+	Silent	SNP	C	C	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	ZCCHC5	NM_152694	exon2	c.G594A	p.Q198Q	GAATTCCTGGGCA	.	71.0	5.0	67.0	0.0	.	101	.	.	.	none	.	.	PASS	Atlas-SNP
ND1	10625	hgsc.bcm.edu	hg19	MT	3659	3659	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	.	ENST00000361390	exon1	c.G353A	p.W118X	TCCTCTGATCAGG	.	178.0	172.0	6.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
COX3	5742	hgsc.bcm.edu	hg19	MT	9466	9466	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	.	ENST00000362079	exon1	c.T260C	p.I87T	TATTTATTACCTC	.	203.0	198.0	17.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
WDR27	253769	hgsc.bcm.edu	hg19	6	170038673	170038674	+	Frame_Shift_Del	DEL	TT	TT	-	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	WDR27	NM_182552	exon18	c.1831_1832del	p.611_611del	.	.	101.0	21.0	213.0	0.0	.	129	.	0.207921	0	none	.	.	PASS	Atlas-INDEL
NUP54	53371	hgsc.bcm.edu	hg19	4	77053755	77053755	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	NUP54	NM_017426	exon6	c.829delC	p.L277fs	.	.	140.0	33.0	199.0	0.0	.	48	.	0.235714	0	none	.	.	PASS	Atlas-Indel,Pindel
HELZ	9931	hgsc.bcm.edu	hg19	17	65144699	65144700	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	HELZ	NM_014877	exon20	c.2607_2608insA	p.H869fs	.	.	134.0	60.0	78.0	0.0	.	160	.	0.447761	0	none	.	.	PASS	Atlas-Indel,Pindel
MTA1	9112	hgsc.bcm.edu	hg19	14	105927224	105927224	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	MTA1	NM_004689	exon10	c.875delA	p.E292fs	.	.	96.0	38.0	166.0	0.0	.	61	.	0.395833	0	none	.	.	PASS	Atlas-Indel,Pindel
PTPN13	5783	hgsc.bcm.edu	hg19	4	87724921	87724947	+	In_Frame_Del	DEL	TCTGGTAAATACACGGGTGCCAACTTA	TCTGGTAAATACACGGGTGCCAACTTA	-	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	TCTGGTAAATACACGGGTGCCAACTTA	TCTGGTAAATACACGGGTGCCAACTTA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	PTPN13	NM_080685	exon43	c.6579_6605del	p.2193_2202del	.	.	73.0	12.0	76.0	0.0	.	203	.	0.164384	0	none	.	.	PASS	Atlas-Indel,Pindel
WDR27	253769	hgsc.bcm.edu	hg19	6	170038676	170038680	+	Frame_Shift_Del	DEL	GCAGG	GCAGG	-	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	GCAGG	GCAGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	WDR27	NM_182552	exon18	c.1825_1829del	p.609_610del	.	.	104.0	21.0	214.0	0.0	.	129	.	0.201923	0	none	.	.	PASS	Atlas-INDEL
ARID4B	51742	hgsc.bcm.edu	hg19	1	235416071	235416072	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	ARID4B	NM_016374	exon6	c.328_329insA	p.G110fs	.	.	177.0	51.0	210.0	0.0	.	142	.	0.288136	0	none	.	.	PASS	Atlas-Indel,Pindel
FOXM1	2305	hgsc.bcm.edu	hg19	12	2967807	2967812	+	In_Frame_Del	DEL	CTGTAG	CTGTAG	-	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	CTGTAG	CTGTAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	FOXM1	NM_202002	exon10	c.2399_2404del	p.800_802del	.	.	44.0	17.0	39.0	0.0	.	62	.	0.386364	0	none	.	.	PASS	Atlas-Indel,Pindel
ZSCAN5B	342933	hgsc.bcm.edu	hg19	19	56701355	56701355	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	ZSCAN5B	NM_001080456	exon4	c.1330delT	p.C444fs	.	.	127.0	45.0	156.0	0.0	.	160	.	0.354331	0	none	.	.	PASS	Atlas-Indel,Pindel
ANKRD52	283373	hgsc.bcm.edu	hg19	12	56646601	56646601	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	ANKRD52	NM_173595	exon12	c.1265delT	p.L422fs	.	.	74.0	20.0	80.0	0.0	.	81	.	0.27027	0	none	.	.	PASS	Atlas-Indel,Pindel
WDR27	253769	hgsc.bcm.edu	hg19	6	170038673	170038680	+	Frame_Shift_Del	DEL	TTCGCAGG	TTCGCAGG	-	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	TTCGCAGG	TTCGCAGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	WDR27	NM_182552	exon18	c.1825_1832del	p.609_611del	.	.	108.0	22.0	216.0	0.0	.	129	.	0.204	.	none	.	.	PASS	Pindel
ARHGEF19	128272	hgsc.bcm.edu	hg19	1	16529006	16529007	+	Frame_Shift_Ins	INS	-	-	CTCAGGTCCCGCACCTGCAGCTCAGCCAT	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	ARHGEF19	NM_153213	exon13	c.1971_1972insATGGCTGAGCTGCAGGTGCGGGACCTGAG	p.S657_L658delinsRWLSCRCGTX	.	.	163.0	21.0	256.0	0.0	.	49	.	0.129	.	none	.	.	PASS	Pindel
NUDT18	79873	hgsc.bcm.edu	hg19	8	21966703	21966708	+	Frame_Shift_Del	DEL	CGCACG	CGCACG	-	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	CGCACG	CGCACG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	NUDT18	NM_024815	exon2	c.106_110del	p.36_37del	.	.	13.0	10.0	5.0	0.0	.	13	.	0.769	.	none	.	.	PASS	Pindel
PTPLA	9200	hgsc.bcm.edu	hg19	10	17659300	17659301	+	Frame_Shift_Ins	INS	-	-	CCGCTGC	novel		TCGA-2Z-A9J2-01A-11D-A382-10	TCGA-2Z-A9J2-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9b136f8d-949c-4f48-9ca6-f9bb90a10bb3	2d763603-a0f5-4dbe-a146-ef518556d752	.	PTPLA	NM_014241	exon1	c.39_40insGCAGCGG	p.G13fs	.	.	38.0	10.0	50.0	0.0	.	34	.	0.263	.	none	.	.	PASS	Pindel
