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
MMEL1	79258	hgsc.bcm.edu	hg19	1	2560862	2560862	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	MMEL1	NM_033467	exon2	c.G62T	p.R21L	CCCGGGCGCTTCT	.	156.0	62.0	260.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
CLSTN1	22883	hgsc.bcm.edu	hg19	1	9815300	9815300	+	Silent	SNP	G	G	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	CLSTN1	NM_001009566	exon4	c.C312A	p.S104S	ACCAGTGGATTTA	.	121.0	44.0	127.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
PRDM2	7799	hgsc.bcm.edu	hg19	1	14075886	14075886	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	PRDM2	NM_015866	exon6	c.T415A	p.W139R	CTGGTCTGGTACA	.	168.0	62.0	184.0	0.0	.	147	.	.	.	none	.	.	PASS	Atlas-SNP
MACF1	23499	hgsc.bcm.edu	hg19	1	39760763	39760763	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	MACF1	NM_012090	exon20	c.C2215G	p.L739V	CGTTCTCTACAAG	.	89.0	31.0	107.0	0.0	.	909	.	.	.	none	.	.	PASS	Atlas-SNP
ST6GALNAC5	81849	hgsc.bcm.edu	hg19	1	77528710	77528710	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	ST6GALNAC5	NM_030965	exon5	c.C830T	p.P277L	TTGGACCTGATGA	.	102.0	34.0	133.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
C1orf51	148523	hgsc.bcm.edu	hg19	1	150259058	150259058	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	C1orf51	NM_144697	exon5	c.T850G	p.L284V	GGTCCTTTAGGCA	.	89.0	32.0	100.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
GOLPH3L	55204	hgsc.bcm.edu	hg19	1	150621097	150621097	+	Silent	SNP	A	A	G	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	GOLPH3L	NM_018178	exon5	c.T558C	p.T186T	ATGAGTAGTCATG	.	171.0	57.0	180.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGEF11	9826	hgsc.bcm.edu	hg19	1	156906702	156906702	+	Silent	SNP	A	A	C	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	ARHGEF11	NM_198236	exon40	c.T4536G	p.A1512A	CCATCTAGCTGCT	.	95.0	33.0	119.0	0.0	.	168	.	.	.	none	.	.	PASS	Atlas-SNP
ATP1A4	480	hgsc.bcm.edu	hg19	1	160144537	160144537	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	ATP1A4	NM_144699	exon15	c.G2311C	p.G771R	GAGGAGGGTGAGG	.	94.0	39.0	97.0	0.0	.	167	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	hg19	1	225555578	225555578	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	DNAH14	NM_001373	exon75	c.G11883T	p.E3961D	TGGAGAGGTAACA	.	166.0	57.0	168.0	0.0	.	300	.	.	.	none	.	.	PASS	Atlas-SNP
GREB1	9687	hgsc.bcm.edu	hg19	2	11706689	11706689	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	GREB1	NM_148903	exon4	c.G361C	p.G121R	CTCGTGGGGGTCA	.	69.0	30.0	82.0	0.0	.	308	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC121	79635	hgsc.bcm.edu	hg19	2	27850108	27850108	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	CCDC121	NM_001142683	exon2	c.T1045C	p.F349L	AAATAAACCGCTT	.	78.0	27.0	96.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
SLC38A11	151258	hgsc.bcm.edu	hg19	2	165809229	165809229	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	SLC38A11	NM_173512	exon2	c.T49A	p.S17T	CATATGAAACCCA	.	157.0	40.0	163.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
MAGI1	9223	hgsc.bcm.edu	hg19	3	65350346	65350346	+	Silent	SNP	T	T	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	MAGI1	NM_004742	exon21	c.A3432T	p.A1144A	CTGTGTTGCTTGG	.	166.0	69.0	212.0	0.0	.	481	.	.	.	none	.	.	PASS	Atlas-SNP
LAMP3	27074	hgsc.bcm.edu	hg19	3	182871611	182871611	+	Silent	SNP	T	T	A	rs201353315	bycluster	TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	LAMP3	NM_014398	exon2	c.A618T	p.A206A	GGCAGGTGCAGCT	.	145.0	50.0	159.0	0.0	.	48	.	.	.	weak	G|0.001;T|0.999	.	PASS	Atlas-SNP
AFP	174	hgsc.bcm.edu	hg19	4	74316462	74316462	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	AFP	NM_001134	exon11	c.G1420A	p.E474K	TGTGGCGAGGGAG	.	147.0	28.0	125.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1109	84162	hgsc.bcm.edu	hg19	4	123175369	123175369	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	KIAA1109	NM_015312	exon36	c.A5942C	p.D1981A	AATCTGATGATTT	.	141.0	64.0	79.0	0.0	.	424	.	.	.	none	.	.	PASS	Atlas-SNP
HMGCS1	3157	hgsc.bcm.edu	hg19	5	43294814	43294814	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	HMGCS1	NM_001098272	exon7	c.C1055G	p.S352C	GCAAGGGAACCAT	.	54.0	17.0	89.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
EDIL3	10085	hgsc.bcm.edu	hg19	5	83362406	83362406	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	EDIL3	NM_005711	exon7	c.T671G	p.M224R	ACTCTCATTTTCC	.	119.0	45.0	101.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
SLC35A4	113829	hgsc.bcm.edu	hg19	5	139947338	139947338	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	SLC35A4	NM_080670	exon3	c.A584T	p.Y195F	TTCTGTACTGCCT	.	57.0	20.0	69.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
DCTN4	51164	hgsc.bcm.edu	hg19	5	150111032	150111032	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	DCTN4	NM_001135643	exon7	c.C578T	p.T193I	AGCCTGGTTCCAA	.	60.0	17.0	73.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
CDHR2	54825	hgsc.bcm.edu	hg19	5	176019773	176019773	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	CDHR2,NS,malignant_melanoma,0,1	CDHR2	NM_017675	exon31	c.G3784A	p.E1262K	AGTCAGGAAATCA	.	84.0	29.0	143.0	0.0	.	152	.	.	.	none	.	.	PASS	Atlas-SNP
PPARD	5467	hgsc.bcm.edu	hg19	6	35387920	35387920	+	Silent	SNP	C	C	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	PPARD	NM_001171818	exon5	c.C147A	p.S49S	GAGCTCCTCGCCA	.	40.0	16.0	52.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
RUNX2	860	hgsc.bcm.edu	hg19	6	45390463	45390463	+	Silent	SNP	G	G	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	RUNX2_ENST00000352853,NS,carcinoma,0,2	RUNX2	NM_001024630	exon3	c.G192A	p.Q64Q	GCAGCAGCAACAG	.	45.0	4.0	63.0	0.0	.	128	.	.	.	none	.	.	PASS	Atlas-SNP
LAMB1	3912	hgsc.bcm.edu	hg19	7	107572669	107572669	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	LAMB1	NM_002291	exon28	c.G4342A	p.D1448N	CTTGGTCCAAGTC	.	145.0	63.0	152.0	0.0	.	185	.	.	.	none	.	.	PASS	Atlas-SNP
ABCB8	11194	hgsc.bcm.edu	hg19	7	150725694	150725694	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	ABCB8	NM_007188	exon1	c.T92A	p.V31D	CAGCTGTCAGGTA	.	69.0	11.0	81.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
NUGGC	389643	hgsc.bcm.edu	hg19	8	27918040	27918040	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	.	NM_001010906	exon8	c.C1000A	p.L334M	CATTCAGAAGGTC	.	91.0	29.0	100.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ANKS6	203286	hgsc.bcm.edu	hg19	9	101540705	101540705	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	ANKS6	NM_173551	exon7	c.C1370T	p.S457F	CACCAGGACTGCC	.	125.0	48.0	169.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
PPP6C	5537	hgsc.bcm.edu	hg19	9	127916020	127916020	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	PPP6C	NM_001123355	exon7	c.T572A	p.L191X	TCTATTAACTAGC	.	50.0	20.0	57.0	0.0	.	108	.	.	.	none	.	.	PASS	Atlas-SNP
SH2D3C	10044	hgsc.bcm.edu	hg19	9	130502080	130502080	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	SH2D3C	NM_170600	exon11	c.C2288T	p.P763L	GGCTCAGGGCCCT	.	149.0	47.0	173.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
GBGT1	26301	hgsc.bcm.edu	hg19	9	136030630	136030630	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	GBGT1	NM_021996	exon6	c.G294C	p.E98D	CAGAAGCTCTGGG	.	89.0	27.0	142.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
DPP7	29952	hgsc.bcm.edu	hg19	9	140008368	140008368	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	DPP7	NM_013379	exon4	c.T434C	p.L145P	CGTCGTAGCGCGC	.	47.0	13.0	57.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	hg19	10	17164807	17164807	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	CUBN	NM_001081	exon6	c.A580G	p.M194V	TTCCCATTGTATT	.	132.0	53.0	145.0	0.0	.	515	.	.	.	none	.	.	PASS	Atlas-SNP
TUBGCP2	10844	hgsc.bcm.edu	hg19	10	135095734	135095734	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	TUBGCP2	NM_001256617	exon17	c.C2486T	p.A829V	TTCCTGGCGAGCT	.	54.0	17.0	75.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
TUBGCP2	10844	hgsc.bcm.edu	hg19	10	135095735	135095735	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	TUBGCP2	NM_001256617	exon17	c.G2485A	p.A829T	TCCTGGCGAGCTC	.	53.0	17.0	73.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
PIK3C2A	5286	hgsc.bcm.edu	hg19	11	17156501	17156501	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	PIK3C2A	NM_002645	exon10	c.T1973C	p.L658P	GCATGGAGTCTGA	.	89.0	32.0	95.0	0.0	.	148	.	.	.	none	.	.	PASS	Atlas-SNP
FJX1	24147	hgsc.bcm.edu	hg19	11	35641396	35641396	+	Silent	SNP	C	C	G	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	FJX1	NM_014344	exon1	c.C1212G	p.A404A	GGCCGCCCTTGCA	.	112.0	28.0	142.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
UCP3	7352	hgsc.bcm.edu	hg19	11	73715620	73715620	+	Silent	SNP	G	G	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	UCP3	NM_003356	exon5	c.C552A	p.P184P	GATGTTGGGCAAA	.	63.0	14.0	103.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
PDE3A	5139	hgsc.bcm.edu	hg19	12	20803382	20803382	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	PDE3A	NM_000921	exon14	c.A2773T	p.N925Y	TAGGTAAATGATG	.	161.0	33.0	131.0	0.0	.	184	.	.	.	none	.	.	PASS	Atlas-SNP
KRT5	3852	hgsc.bcm.edu	hg19	12	52913749	52913749	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	KRT5	NM_000424	exon1	c.C332A	p.A111D	CCACCAGCTCCAC	.	120.0	30.0	95.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
SDR9C7	121214	hgsc.bcm.edu	hg19	12	57324030	57324030	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	SDR9C7	NM_148897	exon2	c.G540A	p.E180E	GAAGGCCTCAACG	.	111.0	44.0	92.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
PAWR	5074	hgsc.bcm.edu	hg19	12	80083574	80083574	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	PAWR	NM_002583	exon2	c.A451T	p.I151F	TCTCGATCTGCCC	.	83.0	20.0	86.0	0.0	.	14	.	.	.	none	.	.	PASS	Atlas-SNP
NUDT4	11163	hgsc.bcm.edu	hg19	12	93793130	93793130	+	Missense_Mutation	SNP	C	C	A	rs142846389	alternate_allele	TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	NUDT4	NM_199040	exon5	c.C521A	p.S174Y	AGACCTCTGGGTT	.	145.0	19.0	139.0	0.0	.	6	.	.	.	alt	C|1.000;T|0.000	.	PASS	Atlas-SNP
METAP2	10988	hgsc.bcm.edu	hg19	12	95907668	95907668	+	Silent	SNP	A	A	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	METAP2	NM_006838	exon11	c.A1425T	p.G475G	CAGAGGAGATGAC	.	127.0	36.0	107.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
ATXN2	6311	hgsc.bcm.edu	hg19	12	112036794	112036794	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	ATXN2	NM_002973	exon1	c.G525A	p.Q175Q	CTGCTGCTGCTGC	.	20.0	7.0	15.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
ANAPC5	51433	hgsc.bcm.edu	hg19	12	121747554	121747554	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	ANAPC5	NM_016237	exon16	c.A2006G	p.K669R	TGGCACTTGGCCA	.	115.0	49.0	100.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
NEK3	4752	hgsc.bcm.edu	hg19	13	52730287	52730287	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	NEK3	NM_002498	exon2	c.T40C	p.S14P	CGAAGGAGCCCTC	.	83.0	28.0	76.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
MYCBP2	23077	hgsc.bcm.edu	hg19	13	77853046	77853046	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	MYCBP2	NM_015057	exon4	c.A595C	p.I199L	CAATAATCTATTT	.	120.0	42.0	119.0	0.0	.	1029	.	.	.	none	.	.	PASS	Atlas-SNP
ATL1	51062	hgsc.bcm.edu	hg19	14	51081222	51081222	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	ATL1	NM_015915	exon8	c.A855T	p.K285N	TGGAAAATTGAAA	.	131.0	43.0	136.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
GNPNAT1	64841	hgsc.bcm.edu	hg19	14	53248584	53248584	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	GNPNAT1	NM_198066	exon4	c.T263A	p.V88D	TCTACAACTGTAA	.	87.0	29.0	74.0	0.0	.	14	.	.	.	none	.	.	PASS	Atlas-SNP
PTPN21	11099	hgsc.bcm.edu	hg19	14	88945296	88945296	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	PTPN21	NM_007039	exon13	c.A2479T	p.K827X	TGTTCTTCTTCCC	.	67.0	16.0	87.0	0.0	.	113	.	.	.	none	.	.	PASS	Atlas-SNP
MTA1	9112	hgsc.bcm.edu	hg19	14	105930891	105930891	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	MTA1	NM_004689	exon14	c.A1331T	p.N444I	GACCAAACCGCAG	.	76.0	27.0	117.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
RASGRF1	5923	hgsc.bcm.edu	hg19	15	79339110	79339110	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	RASGRF1	NM_001145648	exon5	c.G856A	p.V286I	TGCTGACGTCGTC	.	66.0	20.0	107.0	0.0	.	168	.	.	.	none	.	.	PASS	Atlas-SNP
CHD9	80205	hgsc.bcm.edu	hg19	16	53301317	53301317	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	CHD9	NM_025134	exon21	c.C4432G	p.P1478A	GAAAAGCCCAAAC	.	146.0	75.0	113.0	0.0	.	203	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC135	84229	hgsc.bcm.edu	hg19	16	57735929	57735929	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	CCDC135	NM_032269	exon5	c.A586T	p.M196L	TGCTCCATGCTTA	.	72.0	31.0	92.0	0.0	.	97	.	.	.	none	.	.	PASS	Atlas-SNP
SGSM2	9905	hgsc.bcm.edu	hg19	17	2274584	2274584	+	Silent	SNP	C	C	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	SGSM2	NM_014853	exon13	c.C1452A	p.G484G	GCAGGGCTTTGGG	.	84.0	18.0	72.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
CYB5D2	124936	hgsc.bcm.edu	hg19	17	4060165	4060165	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	CYB5D2	NM_144611	exon4	c.G584T	p.G195V	GTGGAGGTGTGAG	.	110.0	49.0	129.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
CYB5D2	124936	hgsc.bcm.edu	hg19	17	4060190	4060190	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	CYB5D2	NM_144611	exon4	c.C609T	p.V203V	TGGCGTCCCCAGG	.	104.0	46.0	128.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
ULK2	9706	hgsc.bcm.edu	hg19	17	19720216	19720216	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	ULK2	NM_001142610	exon13	c.G942A	p.Q314Q	AATATGCTGCATA	.	165.0	74.0	157.0	0.0	.	142	.	.	.	none	.	.	PASS	Atlas-SNP
EFCAB5	374786	hgsc.bcm.edu	hg19	17	28418892	28418892	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	EFCAB5	NM_198529	exon21	c.T3941C	p.I1314T	CAGAGATTGAAAA	.	126.0	39.0	115.0	0.0	.	122	.	.	.	none	.	.	PASS	Atlas-SNP
CRLF3	51379	hgsc.bcm.edu	hg19	17	29120581	29120581	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	CRLF3	NM_015986	exon5	c.A713T	p.H238L	TCTATGTGCAATA	.	129.0	74.0	127.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP16-1	100505753	hgsc.bcm.edu	hg19	17	39465268	39465268	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	KRTAP16-1	NM_001146182	exon1	c.G238A	p.E80K	AAGGCTCACAAAT	.	293.0	156.0	322.0	0.0	.	12	.	.	.	none	.	.	PASS	Atlas-SNP
SCRN2	90507	hgsc.bcm.edu	hg19	17	45916327	45916327	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	SCRN2	NM_138355	exon5	c.T602C	p.I201T	GCCGAGATGTCCG	.	52.0	10.0	67.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
CACNA1G	8913	hgsc.bcm.edu	hg19	17	48674235	48674235	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	CACNA1G	NM_001256360	exon16	c.G3209T	p.S1070I	GCACCAGCAGCAG	.	118.0	5.0	110.0	0.0	.	659	.	.	.	none	.	.	PASS	Atlas-SNP
NT5C	30833	hgsc.bcm.edu	hg19	17	73127154	73127154	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	NT5C	NM_001252377	exon3	c.T322A	p.C108S	CCACACAGTGGTG	.	223.0	52.0	225.0	0.0	.	3	.	.	.	none	.	.	PASS	Atlas-SNP
LPPR3	0	hgsc.bcm.edu	hg19	19	814451	814451	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	.	NM_024888	exon6	c.G898A	p.G300S	CGATGCCCGCCCC	.	29.0	15.0	60.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
MKNK2	2872	hgsc.bcm.edu	hg19	19	2041888	2041888	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	MKNK2	NM_017572	exon11	c.G896A	p.C299Y	CTGCCACAGCGGC	.	57.0	24.0	98.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
KLK7	5650	hgsc.bcm.edu	hg19	19	51485606	51485606	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	KLK7	NM_001243126	exon2	c.C177A	p.S59R	TCCAAGGCTAAGG	.	50.0	9.0	70.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
EPS8L1	54869	hgsc.bcm.edu	hg19	19	55591174	55591174	+	Silent	SNP	G	G	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	EPS8L1	NM_133180	exon5	c.G234A	p.L78L	GCTGCTGCGAGTG	.	67.0	21.0	91.0	0.0	.	122	.	.	.	none	.	.	PASS	Atlas-SNP
NNAT	4826	hgsc.bcm.edu	hg19	20	36151076	36151076	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	NNAT,NS,carcinoma,0,1	NNAT	NM_005386	exon3	c.G161T	p.R54M	TGTTCAGGTACTC	.	71.0	30.0	96.0	0.0	.	8	.	.	.	none	.	.	PASS	Atlas-SNP
GTSF1L	149699	hgsc.bcm.edu	hg19	20	42355169	42355169	+	Silent	SNP	G	G	A	rs17826038	bycluster;byfrequency;byhapmap;by1000genomes;alternate_allele	TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	GTSF1L	NM_001008901	exon1	c.C166T	p.L56L	CCTCCAGATTTTT	.	132.0	48.0	173.0	0.0	.	14	.	.	.	alt	G|0.981;C|0.019	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	hg19	20	62198210	62198210	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	.	NM_001037335	exon7	c.C2501G	p.S834C	CCGTGGGAAACGA	.	36.0	12.0	48.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
MX2	4600	hgsc.bcm.edu	hg19	21	42770936	42770936	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	MX2	NM_002463	exon9	c.T1262C	p.F421S	TGTTCTTTCTAAT	.	79.0	28.0	111.0	0.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
TBC1D10A	83874	hgsc.bcm.edu	hg19	22	30690962	30690962	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	TBC1D10A	NM_001204240	exon5	c.G628T	p.A210S	CAGCGGCAATGGG	.	68.0	20.0	101.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
MORC2	22880	hgsc.bcm.edu	hg19	22	31331096	31331096	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	MORC2	NM_014941	exon20	c.T1679C	p.I560T	TTCCTGATCACAG	.	78.0	31.0	117.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGAP6	395	hgsc.bcm.edu	hg19	X	11160422	11160422	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	ARHGAP6	NM_013427	exon12	c.G2188A	p.E730K	AAGGCTCCTCTGA	.	151.0	95.0	200.0	0.0	.	130	.	.	.	none	.	.	PASS	Atlas-SNP
GPRASP1	9737	hgsc.bcm.edu	hg19	X	101909675	101909675	+	Silent	SNP	T	T	C	rs369864268	alternate_allele	TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	GPRASP1	NM_001099411	exon3	c.T834C	p.D278D	GGAAGATCCCAAT	.	61.0	43.0	91.0	0.0	.	140	.	.	.	alt	.	.	PASS	Atlas-SNP
RGAG1	57529	hgsc.bcm.edu	hg19	X	109697329	109697329	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	RGAG1	NM_020769	exon3	c.T3484C	p.C1162R	GGCTCATGCTCTG	.	160.0	121.0	178.0	0.0	.	168	.	.	.	none	.	.	PASS	Atlas-SNP
TEX9	374618	hgsc.bcm.edu	hg19	15	56686971	56686972	+	Frame_Shift_Del	DEL	TT	TT	-	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	TEX9	NM_198524	exon9	c.766_767del	p.256_256del	.	.	447.0	161.0	535.0	0.0	.	29	.	0.360179	0	none	.	.	PASS	Atlas-Indel,Pindel
KIAA0146	23514	hgsc.bcm.edu	hg19	8	48625228	48625240	+	Frame_Shift_Del	DEL	AGAGTCTGCTGCT	AGAGTCTGCTGCT	-	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	AGAGTCTGCTGCT	AGAGTCTGCTGCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	KIAA0146	NM_001080394	exon15	c.1981_1993del	p.661_665del	.	.	78.0	15.0	85.0	0.0	.	64	.	0.192308	0	none	.	.	PASS	Atlas-Indel,Pindel
XDH	7498	hgsc.bcm.edu	hg19	2	31600100	31600100	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	XDH	NM_000379	exon14	c.1247delA	p.E416fs	.	.	72.0	31.0	77.0	0.0	.	191	.	0.430556	0	none	.	.	PASS	Atlas-Indel,Pindel
NET1	10276	hgsc.bcm.edu	hg19	10	5494436	5494436	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	NET1	NM_001047160	exon5	c.478delC	p.L160fs	.	.	106.0	35.0	76.0	0.0	.	82	.	0.330189	0	none	.	.	PASS	Atlas-Indel,Pindel
SLC41A3	54946	hgsc.bcm.edu	hg19	3	125725271	125725271	+	Frame_Shift_Del	DEL	C	C	-	rs377657493	alternate_allele	TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	SLC41A3	NM_001008485	exon12	c.1504delT	p.L502X	.	.	219.0	72.0	322.0	0.0	.	80	.	0.328767	0	alt	.	.	PASS	Atlas-Indel,Pindel
LRRK1	79705	hgsc.bcm.edu	hg19	15	101550745	101550745	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	LRRK1	NM_024652	exon8	c.1079delC	p.S360X	.	.	216.0	67.0	285.0	0.0	.	310	.	0.310185	0	none	.	.	PASS	Atlas-Indel,Pindel
TTC28	23331	hgsc.bcm.edu	hg19	22	28490116	28490118	+	In_Frame_Del	DEL	TGC	TGC	-	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	TGC	TGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	TTC28	NM_001145418	exon12	c.3883_3885del	p.1295_1295del	.	.	73.0	26.0	82.0	0.0	.	84	.	0.356164	0	none	.	.	PASS	Atlas-Indel,Pindel
TEP1	7011	hgsc.bcm.edu	hg19	14	20839416	20839416	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	TEP1	NM_007110	exon51	c.7279delG	p.V2427fs	.	.	113.0	32.0	174.0	0.0	.	224	.	0.283186	0	none	.	.	PASS	Atlas-Indel,Pindel
SMC6	79677	hgsc.bcm.edu	hg19	2	17902443	17902443	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	SMC6	NM_001142286	exon10	c.813delA	p.L271fs	.	.	366.0	114.0	341.0	0.0	.	102	.	0.311475	0	none	.	.	PASS	Atlas-Indel,Pindel
TF	7018	hgsc.bcm.edu	hg19	3	133497449	133497449	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	TF	NM_001063	exon17	c.2081delC	p.T694fs	.	.	90.0	26.0	100.0	0.0	.	116	.	0.288889	0	none	.	.	PASS	Atlas-Indel,Pindel
CERS3	204219	hgsc.bcm.edu	hg19	15	100943017	100943018	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	LASS3,colon,carcinoma,0,1	.	NM_178842	exon13	c.1053_1054insA	p.E351fs	.	.	67.0	25.0	58.0	0.0	.	.	.	0.373134	0	none	.	.	PASS	Atlas-INDEL
CNTF	1270	hgsc.bcm.edu	hg19	11	58391563	58391569	+	Frame_Shift_Del	DEL	AGTGGCA	AGTGGCA	-	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	AGTGGCA	AGTGGCA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	CNTF	NM_000614	exon2	c.170_176del	p.57_59del	.	.	108.0	33.0	91.0	0.0	.	22	.	0.305556	0	none	.	.	PASS	Atlas-Indel,Pindel
RBMS2	5939	hgsc.bcm.edu	hg19	12	56975006	56975007	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	RBMS2	NM_002898	exon6	c.581_582insT	p.H194fs	.	.	110.0	59.0	101.0	0.0	.	29	.	0.536364	0	none	.	.	PASS	Atlas-Indel,Pindel
CNST	163882	hgsc.bcm.edu	hg19	1	246829056	246829056	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	CNST	NM_152609	exon11	c.2026delG	p.V676fs	.	.	88.0	29.0	117.0	0.0	.	73	.	0.329545	0	none	.	.	PASS	Atlas-Indel,Pindel
SPATA8	145946	hgsc.bcm.edu	hg19	15	97328262	97328262	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-SX-A7SR-01A-12D-A35Z-10	TCGA-SX-A7SR-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	4ac24403-4088-4192-a6ee-57913809b464	3c89ac32-79c6-4277-ace0-1bc1779f3be8	.	SPATA8	NM_173499	exon3	c.232delC	p.Q78fs	.	.	43.0	15.0	66.0	0.0	.	42	.	0.348837	0	none	.	.	PASS	Atlas-Indel,Pindel
