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
UBR4	23352	hgsc.bcm.edu	hg19	1	19504023	19504023	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	UBR4	NM_020765	exon19	c.C2569G	p.R857G	GGAGGCGAGCCAA	.	256.0	130.0	248.0	0.0	.	415	.	.	.	none	.	.	PASS	Atlas-SNP
GJB5	2709	hgsc.bcm.edu	hg19	1	35223633	35223633	+	Silent	SNP	C	C	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	GJB5	NM_005268	exon2	c.C702T	p.T234T	CGGTACCACCTCT	.	332.0	145.0	415.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
GNL2	29889	hgsc.bcm.edu	hg19	1	38040324	38040324	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	GNL2	NM_013285	exon11	c.G1244C	p.W415S	TTCTCCCAAGAAT	.	92.0	46.0	93.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
ATP1A1	476	hgsc.bcm.edu	hg19	1	116941337	116941337	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	ATP1A1	NM_001160233	exon16	c.A2219G	p.D740G	GCTCAGATGTGTC	.	152.0	60.0	165.0	0.0	.	87	.	.	.	none	.	.	PASS	Atlas-SNP
LCE2A	353139	hgsc.bcm.edu	hg19	1	152671534	152671534	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	LCE2A,NS,carcinoma,0,1	LCE2A	NM_178428	exon2	c.G157A	p.G53S	TGCTGCGGCTCCA	.	40.0	6.0	16.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
OR6Y1	391112	hgsc.bcm.edu	hg19	1	158517180	158517180	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	OR6Y1	NM_001005189	exon1	c.G716A	p.R239H	TTTTGGCGGCCCT	.	173.0	81.0	179.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	hg19	1	228469852	228469852	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	OBSCN	NM_001271223	exon36	c.G9703T	p.E3235X	GCCGGGGAGGTGG	.	232.0	108.0	154.0	0.0	.	2142	.	.	.	none	.	.	PASS	Atlas-SNP
LYST	1130	hgsc.bcm.edu	hg19	1	235884164	235884164	+	Silent	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	LYST	NM_000081	exon40	c.C9357T	p.L3119L	ATTAGGGAGGTTA	.	71.0	28.0	76.0	0.0	.	370	.	.	.	none	.	.	PASS	Atlas-SNP
FAM110C	642273	hgsc.bcm.edu	hg19	2	45688	45688	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	FAM110C	NM_001077710	exon1	c.G698A	p.G233E	TCCCTCCCCAGGG	.	18.0	10.0	15.0	0.0	.	11	.	.	.	none	.	.	PASS	Atlas-SNP
DNMT3A	1788	hgsc.bcm.edu	hg19	2	25469542	25469542	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	DNMT3A	NM_175629	exon10	c.G1226A	p.W409X	AGGGCCCATTCAA	.	112.0	48.0	124.0	0.0	.	1807	.	.	.	none	.	.	PASS	Atlas-SNP
C2orf16	84226	hgsc.bcm.edu	hg19	2	27801772	27801772	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	C2orf16	NM_032266	exon1	c.A2333T	p.E778V	AGCCTGAAGAGAC	.	39.0	16.0	44.0	0.0	.	357	.	.	.	none	.	.	PASS	Atlas-SNP
GEMIN6	79833	hgsc.bcm.edu	hg19	2	39008788	39008788	+	Silent	SNP	C	C	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	GEMIN6	NM_024775	exon3	c.C258T	p.F86F	TTTGTTCACGTCT	.	127.0	43.0	127.0	0.0	.	13	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF638	27332	hgsc.bcm.edu	hg19	2	71607375	71607375	+	Silent	SNP	T	T	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	ZNF638	NM_014497	exon9	c.T2289C	p.T763T	AAAGACTTTAGAG	.	118.0	49.0	85.0	0.0	.	179	.	.	.	none	.	.	PASS	Atlas-SNP
C2orf81	388963	hgsc.bcm.edu	hg19	2	74643027	74643027	+	Silent	SNP	G	G	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	C2orf81	NM_001145054	exon3	c.C286A	p.R96R	CCTCCCGGGCCTG	.	117.0	49.0	85.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
FER1L5	90342	hgsc.bcm.edu	hg19	2	97359251	97359251	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	FER1L5	NM_001113382	exon31	c.A3382T	p.I1128F	CCCTTCATTCGGG	.	85.0	34.0	78.0	0.0	.	113	.	.	.	none	.	.	PASS	Atlas-SNP
ST6GAL2	84620	hgsc.bcm.edu	hg19	2	107459932	107459932	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	ST6GAL2	NM_032528	exon2	c.G502C	p.V168L	TCTGGACCTGTGC	.	165.0	63.0	123.0	0.0	.	159	.	.	.	none	.	.	PASS	Atlas-SNP
TNFAIP6	7130	hgsc.bcm.edu	hg19	2	152235994	152235994	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	TNFAIP6	NM_007115	exon6	c.A781T	p.T261S	ACAAGTACTACTT	.	83.0	39.0	56.0	0.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
UNC80	285175	hgsc.bcm.edu	hg19	2	210742711	210742711	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	UNC80_ENST00000439458,colon,carcinoma,0,1	UNC80	NM_032504	exon24	c.G3880A	p.G1294R	TGCCACGGGGAAA	.	112.0	36.0	98.0	0.0	.	280	.	.	.	none	.	.	PASS	Atlas-SNP
SMARCAL1	50485	hgsc.bcm.edu	hg19	2	217285132	217285132	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	SMARCAL1	NM_014140	exon5	c.G973A	p.A325T	CCATCAGCTCCAT	.	249.0	93.0	237.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
KCNJ13	3769	hgsc.bcm.edu	hg19	2	233633228	233633228	+	Silent	SNP	A	A	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	KCNJ13	NM_002242	exon3	c.T756A	p.P252P	AGCCAGAGGACTT	.	200.0	87.0	164.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
GIGYF2	26058	hgsc.bcm.edu	hg19	2	233659498	233659498	+	Silent	SNP	T	T	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	GIGYF2	NM_001103147	exon15	c.T1386A	p.P462P	GATTCCTTCAGAT	.	92.0	44.0	94.0	0.0	.	288	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1407	57577	hgsc.bcm.edu	hg19	3	113697143	113697143	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	KIAA1407	NM_020817	exon16	c.T2496G	p.F832L	TACACAAAATTTT	.	63.0	27.0	45.0	0.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
ABCC5	10057	hgsc.bcm.edu	hg19	3	183669307	183669307	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	ABCC5	NM_005688	exon20	c.C2866G	p.L956V	TTCGAAGGATCCT	.	71.0	41.0	86.0	0.0	.	142	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA0226	9711	hgsc.bcm.edu	hg19	3	197408102	197408102	+	Silent	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	KIAA0226	NM_014687	exon16	c.C2328T	p.F776F	CTTGGAGAAGTTG	.	154.0	72.0	177.0	0.0	.	136	.	.	.	none	.	.	PASS	Atlas-SNP
GAK	2580	hgsc.bcm.edu	hg19	4	882734	882734	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	GAK	NM_005255	exon11	c.A1106T	p.Q369L	TACGGCTGGTCGT	.	63.0	29.0	46.0	0.0	.	104	.	.	.	none	.	.	PASS	Atlas-SNP
ADD1	118	hgsc.bcm.edu	hg19	4	2916729	2916729	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	ADD1	NM_176801	exon13	c.A1817G	p.Y606C	AGGAGTACCGCAG	.	196.0	89.0	197.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
SLC10A4	201780	hgsc.bcm.edu	hg19	4	48487158	48487158	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	SLC10A4	NM_152679	exon2	c.A800C	p.K267T	TTGTGAAGGTAAG	.	198.0	71.0	157.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1211	57482	hgsc.bcm.edu	hg19	4	57182735	57182735	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	KIAA1211	NM_020722	exon8	c.G3067A	p.E1023K	CCCGAGGAAAGGA	.	66.0	18.0	68.0	0.0	.	178	.	.	.	none	.	.	PASS	Atlas-SNP
C4orf17	84103	hgsc.bcm.edu	hg19	4	100434294	100434294	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	C4orf17	NM_032149	exon2	c.T56C	p.I19T	GCCATATTATGGC	.	151.0	65.0	132.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
SH3D19	152503	hgsc.bcm.edu	hg19	4	152096316	152096316	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	SH3D19	NM_001128924	exon1	c.A200T	p.E67V	TCCCACTCTCCAG	.	76.0	34.0	80.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
SH3D19	152503	hgsc.bcm.edu	hg19	4	152096322	152096322	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	SH3D19	NM_001128924	exon1	c.C194T	p.S65F	TCTCCAGAAGCTC	.	83.0	40.0	85.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
FSTL5	56884	hgsc.bcm.edu	hg19	4	162307106	162307106	+	Silent	SNP	T	T	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	FSTL5	NM_020116	exon16	c.A2337T	p.I779I	ACTCTTTATCATC	.	153.0	74.0	132.0	0.0	.	207	.	.	.	none	.	.	PASS	Atlas-SNP
WDR17	116966	hgsc.bcm.edu	hg19	4	177089815	177089815	+	Missense_Mutation	SNP	G	G	C	rs371828424	alternate_allele	TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	WDR17	NM_170710	exon25	c.G3100C	p.V1034L	TGTTACGTTAACA	.	77.0	30.0	63.0	0.0	.	198	.	.	.	alt	.	.	PASS	Atlas-SNP
TNPO1	3842	hgsc.bcm.edu	hg19	5	72183032	72183032	+	Nonsense_Mutation	SNP	T	T	G	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	TNPO1	NM_002270	exon12	c.T1286G	p.L429X	TGGTTTTAGGAGC	.	72.0	10.0	72.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
SLC23A1	9963	hgsc.bcm.edu	hg19	5	138718252	138718252	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	SLC23A1	NM_005847	exon2	c.C79T	p.P27S	ACTTAGGCTCTGT	.	170.0	76.0	199.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	hg19	5	150911353	150911353	+	Silent	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	FAT2	NM_001447	exon13	c.C9606T	p.G3202G	GACGGTGCCCAGC	.	16.0	7.0	9.0	0.0	.	465	.	.	.	none	.	.	PASS	Atlas-SNP
LCP2	3937	hgsc.bcm.edu	hg19	5	169680134	169680134	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	LCP2	NM_005565	exon18	c.G1234A	p.A412T	CCTCCGCGGGGGA	.	43.0	12.0	38.0	0.0	.	133	.	.	.	none	.	.	PASS	Atlas-SNP
ZSCAN12	9753	hgsc.bcm.edu	hg19	6	28359289	28359289	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	ZSCAN12	NM_001163391	exon4	c.G778C	p.D260H	TATGGTCAGAGTT	.	141.0	51.0	161.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
C6orf211	79624	hgsc.bcm.edu	hg19	6	151790234	151790234	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	C6orf211	NM_024573	exon5	c.G1315A	p.G439S	TACGATGGTCCCC	.	64.0	24.0	65.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
EIF2AK1	27102	hgsc.bcm.edu	hg19	7	6078297	6078297	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	EIF2AK1	NM_014413	exon10	c.G1125C	p.Q375H	GTGGTACTGTGCC	.	134.0	21.0	93.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
PLEKHA8	84725	hgsc.bcm.edu	hg19	7	30094389	30094389	+	Silent	SNP	T	T	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	PLEKHA8	NM_001197027	exon8	c.T861C	p.T287T	CTTGACTCAGTCT	.	353.0	139.0	143.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
POLM	27434	hgsc.bcm.edu	hg19	7	44114102	44114102	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	POLM	NM_013284	exon7	c.C863T	p.T288I	ACTGGGGTGCTCA	.	130.0	40.0	31.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
OGDH	4967	hgsc.bcm.edu	hg19	7	44735721	44735721	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	OGDH	NM_002541	exon13	c.G1766T	p.W589L	CTCCCTGGCCTGG	.	155.0	35.0	84.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
OGDH	4967	hgsc.bcm.edu	hg19	7	44735723	44735723	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	OGDH	NM_002541	exon13	c.C1768A	p.P590T	CCCTGGCCTGGTG	.	153.0	34.0	81.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF727	442319	hgsc.bcm.edu	hg19	7	63538568	63538568	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	ZNF727	NM_001159522	exon4	c.T1141C	p.S381P	TGGTTCTCAGACC	.	171.0	7.0	63.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
MUC12	10071	hgsc.bcm.edu	hg19	7	100646199	100646199	+	Missense_Mutation	SNP	T	T	C	rs4632981		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	MUC12,NS,carcinoma,0,1	MUC12	NM_001164462	exon2	c.T12355C	p.F4119L	ACACACTTTTCTG	.	3.0	2.0	3.0	0.0	.	140	.	.	.	weak	C|1.000;|0.000	1.000	PASS	Atlas-SNP
CSPP1	79848	hgsc.bcm.edu	hg19	8	68107797	68107797	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	CSPP1	NM_024790	exon29	c.C3635T	p.T1212I	CTTTCACTTGGCA	.	263.0	84.0	222.0	0.0	.	129	.	.	.	none	.	.	PASS	Atlas-SNP
PUF60	22827	hgsc.bcm.edu	hg19	8	144902839	144902839	+	Silent	SNP	T	T	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	PUF60	NM_078480	exon5	c.A345G	p.Q115Q	GACCGATTGCAAA	.	62.0	26.0	82.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF438	220929	hgsc.bcm.edu	hg19	10	31134006	31134006	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	ZNF438	NM_182755	exon8	c.C2371T	p.L791F	GGAGGAGGTCCTC	.	143.0	53.0	152.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF33B	7582	hgsc.bcm.edu	hg19	10	43088357	43088357	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	ZNF33B	NM_006955	exon5	c.A2041G	p.I681V	GTAAAATAAGTCC	.	76.0	32.0	60.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
AFAP1L2	84632	hgsc.bcm.edu	hg19	10	116100456	116100456	+	Silent	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	AFAP1L2	NM_032550	exon2	c.C51T	p.F17F	CTTGAGGAAGTCA	.	95.0	33.0	106.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
OR51G2	81282	hgsc.bcm.edu	hg19	11	4936503	4936503	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	OR51G2	NM_001005238	exon1	c.A391G	p.I131V	GGCAGATAGCCAC	.	56.0	23.0	52.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
SYT13	57586	hgsc.bcm.edu	hg19	11	45277229	45277229	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	SYT13	NM_020826	exon2	c.C397G	p.L133V	GAGGGAGGATGAA	.	39.0	17.0	52.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
LTBP3	4054	hgsc.bcm.edu	hg19	11	65319017	65319017	+	Splice_Site	SNP	A	A	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	LTBP3	NM_001164266	exon10	c.1197+2T>A	.	ATACTCACTGAGT	.	107.0	35.0	128.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
SIPA1	6494	hgsc.bcm.edu	hg19	11	65412463	65412463	+	Missense_Mutation	SNP	G	G	A	rs146916012	bycluster	TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	SIPA1	NM_006747	exon5	c.G1022A	p.R341Q	ACTGCCGGGCGGG	.	187.0	88.0	142.0	0.0	.	45	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
CHEK1	1111	hgsc.bcm.edu	hg19	11	125497532	125497532	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	CHEK1	NM_001244846	exon3	c.A96C	p.E32D	AACTGAAGAAGCA	.	71.0	34.0	61.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
NFRKB	4798	hgsc.bcm.edu	hg19	11	129747271	129747271	+	Silent	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	NFRKB	NM_006165	exon14	c.C1596T	p.D532D	CACATAGTCAGTT	.	74.0	27.0	111.0	0.0	.	101	.	.	.	none	.	.	PASS	Atlas-SNP
C12orf57	113246	hgsc.bcm.edu	hg19	12	7053729	7053729	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	C12orf57	NM_138425	exon2	c.G143T	p.G48V	ACATGGGTAAGAT	.	203.0	118.0	95.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
APOBEC1	339	hgsc.bcm.edu	hg19	12	7818467	7818467	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	APOBEC1	NM_001644	exon1	c.T2C	p.M1T	GAAGTCATGGTGC	.	226.0	54.0	153.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
PLEKHA5	54477	hgsc.bcm.edu	hg19	12	19500042	19500042	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	PLEKHA5	NM_001256470	exon24	c.A2824G	p.R942G	TATAGCAGGGGCC	.	172.0	47.0	118.0	0.0	.	198	.	.	.	none	.	.	PASS	Atlas-SNP
SPRYD4	283377	hgsc.bcm.edu	hg19	12	56862411	56862411	+	Silent	SNP	C	C	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	SPRYD4	NM_207344	exon1	c.C36T	p.C12C	CTTGTGCCGCTGG	.	110.0	5.0	85.0	0.0	.	13	.	.	.	none	.	.	PASS	Atlas-SNP
SLC5A8	160728	hgsc.bcm.edu	hg19	12	101588897	101588897	+	Silent	SNP	C	C	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	SLC5A8	NM_145913	exon4	c.G513A	p.V171V	GCAGACCACCCCC	.	108.0	61.0	101.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
BTBD11	121551	hgsc.bcm.edu	hg19	12	107713245	107713245	+	Silent	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	BTBD11	NM_001018072	exon1	c.G528A	p.A176A	GGCCGCGCACTGT	.	10.0	7.0	2.0	0.0	.	122	.	.	.	none	.	.	PASS	Atlas-SNP
GPC6	10082	hgsc.bcm.edu	hg19	13	94197565	94197565	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	GPC6	NM_005708	exon2	c.A210T	p.E70D	CACAGAAATGGAA	.	95.0	42.0	82.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
LRFN5	145581	hgsc.bcm.edu	hg19	14	42360768	42360768	+	Silent	SNP	C	C	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	LRFN5	NM_152447	exon4	c.C1701T	p.S567S	GGTTAGCAATGTT	.	113.0	43.0	102.0	0.0	.	269	.	.	.	none	.	.	PASS	Atlas-SNP
NEK9	91754	hgsc.bcm.edu	hg19	14	75558059	75558059	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	NEK9	NM_033116	exon19	c.C2356T	p.R786X	TTCCTCGGTCTGC	.	70.0	32.0	74.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
ZBTB42	100128927	hgsc.bcm.edu	hg19	14	105268528	105268528	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	ZBTB42	NM_001137601	exon2	c.G994A	p.V332M	GACGGCGTGGCAC	.	53.0	22.0	28.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
MTMR10	54893	hgsc.bcm.edu	hg19	15	31251264	31251264	+	Silent	SNP	G	G	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	MTMR10	NM_017762	exon8	c.C819G	p.S273S	AGAATGGGAAAAG	.	85.0	38.0	82.0	0.0	.	74	.	.	.	none	.	.	PASS	Atlas-SNP
COPS2	9318	hgsc.bcm.edu	hg19	15	49421727	49421727	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	COPS2	NM_001143887	exon11	c.C1096T	p.L366F	TTATAAGCACTTG	.	85.0	35.0	104.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
AP4E1	23431	hgsc.bcm.edu	hg19	15	51294808	51294808	+	Silent	SNP	T	T	G	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	AP4E1	NM_007347	exon21	c.T3363G	p.T1121T	TTCTACTCTTCCT	.	128.0	69.0	169.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
ADCY9	115	hgsc.bcm.edu	hg19	16	4164714	4164714	+	Silent	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	ADCY9	NM_001116	exon2	c.C730T	p.L244L	AACTCAGGTACAA	.	154.0	55.0	170.0	0.0	.	151	.	.	.	none	.	.	PASS	Atlas-SNP
MPRIP	23164	hgsc.bcm.edu	hg19	17	17075111	17075111	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	MPRIP	NM_015134	exon16	c.G2243A	p.R748Q	ACCAGCGGGAGCT	.	288.0	176.0	195.0	0.0	.	87	.	.	.	none	.	.	PASS	Atlas-SNP
PSMC3IP	29893	hgsc.bcm.edu	hg19	17	40729246	40729246	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	PSMC3IP,NS,carcinoma,0,1	PSMC3IP	NM_016556	exon3	c.C210G	p.I70M	AAAATAGATCTTC	.	173.0	66.0	118.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
TRIM25	7706	hgsc.bcm.edu	hg19	17	54969126	54969126	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	TRIM25	NM_005082	exon9	c.G1828C	p.A610P	ACAAAGCCTCAGT	.	194.0	116.0	138.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
LAMA3	3909	hgsc.bcm.edu	hg19	18	21508090	21508090	+	Silent	SNP	T	T	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	LAMA3	NM_198129	exon63	c.T8181C	p.F2727F	CAGATTTAACATT	.	137.0	50.0	117.0	0.0	.	397	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF407	55628	hgsc.bcm.edu	hg19	18	72345617	72345617	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	ZNF407	NM_001146190	exon1	c.G2642A	p.C881Y	ATTTATGCAAAGT	.	136.0	39.0	126.0	0.0	.	231	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF407	55628	hgsc.bcm.edu	hg19	18	72345618	72345618	+	Silent	SNP	C	C	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	ZNF407	NM_001146190	exon1	c.C2643T	p.C881C	TTTATGCAAAGTG	.	132.0	38.0	126.0	0.0	.	231	.	.	.	none	.	.	PASS	Atlas-SNP
SMARCA4	6597	hgsc.bcm.edu	hg19	19	11134305	11134305	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	SMARCA4	NM_003072	exon20	c.A2971G	p.K991E	CCCGAAAAGGTGA	.	86.0	32.0	106.0	0.0	.	502	.	.	.	none	.	.	PASS	Atlas-SNP
CYP2A13	1553	hgsc.bcm.edu	hg19	19	41599643	41599643	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	CYP2A13	NM_000766	exon6	c.T940G	p.F314V	TACGGTTTCCTGC	.	113.0	43.0	116.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
SOGA1	140710	hgsc.bcm.edu	hg19	20	35438421	35438421	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	SOGA1	NM_080627	exon7	c.G2547C	p.K849N	CTCCTCCTTTCGT	.	69.0	26.0	61.0	0.0	.	136	.	.	.	none	.	.	PASS	Atlas-SNP
NPEPL1	79716	hgsc.bcm.edu	hg19	20	57282247	57282247	+	Silent	SNP	A	A	C	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	NPEPL1	NM_024663	exon7	c.A891C	p.A297A	AGCCGCAATCAAG	.	20.0	9.0	30.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
BID	637	hgsc.bcm.edu	hg19	22	18226632	18226632	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	BID	NM_197966	exon3	c.T298C	p.Y100H	CATCGTAGCCCTC	.	58.0	16.0	61.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
AKAP17A	8227	hgsc.bcm.edu	hg19	X	1719998	1719998	+	Silent	SNP	C	C	T	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	AKAP17A	NM_005088	exon5	c.C1599T	p.P533P	GGTCCCCGAGGAT	.	96.0	7.0	113.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
LPAR4	2846	hgsc.bcm.edu	hg19	X	78010716	78010716	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	LPAR4	NM_005296	exon2	c.C350A	p.A117E	GAACTGCATTCCT	.	110.0	92.0	128.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	hg19	10	129902143	129902143	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	MKI67	NM_002417	exon13	c.7962delA	p.P2654fs	.	.	118.0	50.0	131.0	0.0	.	363	.	0.423729	0	none	.	.	PASS	Atlas-Indel,Pindel
EIF2AK1	27102	hgsc.bcm.edu	hg19	7	6078295	6078296	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	EIF2AK1	NM_014413	exon10	c.1127_1128insT	p.Y376fs	.	.	137.0	20.0	92.0	0.0	.	76	.	0.145985	0	none	.	.	PASS	Atlas-INDEL
EIF2AK1	27102	hgsc.bcm.edu	hg19	7	6078298	6078299	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	EIF2AK1	NM_014413	exon10	c.1124_1125insT	p.Q375fs	.	.	134.0	20.0	92.0	0.0	.	76	.	0.149254	0	none	.	.	PASS	Atlas-INDEL
BDNF	627	hgsc.bcm.edu	hg19	11	27680049	27680056	+	Frame_Shift_Del	DEL	CATGGGGG	CATGGGGG	-	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	CATGGGGG	CATGGGGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	BDNF	NM_001143810	exon3	c.303_310del	p.101_104del	.	.	91.0	27.0	121.0	0.0	.	63	.	0.296703	0	none	.	.	PASS	Atlas-Indel,Pindel
NFE2L3	9603	hgsc.bcm.edu	hg19	7	26224635	26224636	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	NFE2L3	NM_004289	exon4	c.1316_1317del	p.439_439del	.	.	172.0	42.0	97.0	0.0	.	77	.	0.244186	0	none	.	.	PASS	Atlas-Indel,Pindel
SH3D19	152503	hgsc.bcm.edu	hg19	4	152096326	152096326	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	SH3D19	NM_001128924	exon1	c.191delC	p.A64fs	.	.	81.0	39.0	84.0	0.0	.	54	.	0.481481	0	none	.	.	PASS	Atlas-Indel,Pindel
VLDLR	7436	hgsc.bcm.edu	hg19	9	2643309	2643310	+	In_Frame_Ins	INS	-	-	GCA	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	VLDLR	NM_003383	exon5	c.598_599insGCA	p.C200delinsCS	.	.	141.0	52.0	131.0	0.0	.	68	.	0.368794	0	none	.	.	PASS	Atlas-Indel,Pindel
TBCK	93627	hgsc.bcm.edu	hg19	4	107163709	107163709	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	TBCK	NM_001163435	exon12	c.1089delT	p.G363fs	.	.	28.0	17.0	27.0	0.0	.	89	.	0.607143	0	none	.	.	PASS	Atlas-Indel,Pindel
TAS2R43	259289	hgsc.bcm.edu	hg19	12	11244149	11244149	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	TAS2R43	NM_176884	exon1	c.681delT	p.A227fs	.	.	32.0	17.0	10.0	0.0	.	19	.	0.53125	0	none	.	.	PASS	Atlas-INDEL
SLC38A10	124565	hgsc.bcm.edu	hg19	17	79225020	79225080	+	Frame_Shift_Del	DEL	GGGGAGCAAGGGAGATAAAACGGTAATCACAAGCCATGTGACGATGCCGCAGGTGTTTAAA	GGGGAGCAAGGGAGATAAAACGGTAATCACAAGCCATGTGACGATGCCGCAGGTGTTTAAA	-	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	GGGGAGCAAGGGAGATAAAACGGTAATCACAAGCCATGTGACGATGCCGCAGGTGTTTAAA	GGGGAGCAAGGGAGATAAAACGGTAATCACAAGCCATGTGACGATGCCGCAGGTGTTTAAA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	SLC38A10	NM_138570	exon14	c.2279_2339del	p.760_780del	.	.	138.0	16.0	138.0	0.0	.	133	.	0.116	.	none	.	.	PASS	Pindel
CANX	821	hgsc.bcm.edu	hg19	5	179136997	179136997	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	CANX	NM_001746	exon7	c.651delA	p.K217fs	.	.	59.0	19.0	61.0	0.0	.	47	.	0.322	.	none	.	.	PASS	Pindel
EIF2AK1	27102	hgsc.bcm.edu	hg19	7	6078297	6078298	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-MH-A55Z-01A-11D-A26P-10	TCGA-MH-A55Z-10A-01D-A26P-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b19ec4cd-2876-4a2b-bcb9-b3c8db54fc15	3d292f02-ebb2-457b-b5a3-1590b60833a6	.	EIF2AK1	NM_014413	exon10	c.1125_1126del	p.375_376del	.	.	135.0	17.0	92.0	0.0	.	76	.	0.126	.	none	.	.	PASS	Pindel
