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
PGD	5226	hgsc.bcm.edu	hg19	1	10473152	10473152	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	PGD	NM_002631	exon8	c.T688C	p.S230P	CTAGACTCATTCC	.	49.0	12.0	56.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	hg19	1	19491316	19491316	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	UBR4,NS,carcinoma,0,1	UBR4	NM_020765	exon32	c.C4488T	p.T1496T	GTATGTGGTCAGT	.	64.0	19.0	54.0	0.0	.	415	.	.	.	none	.	.	PASS	Atlas-SNP
CDKN2C	1031	hgsc.bcm.edu	hg19	1	51439795	51439795	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	CDKN2C	NM_001262	exon3	c.G360A	p.E120E	GGTGGAGTTCCTG	.	85.0	26.0	89.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
RPRD2	23248	hgsc.bcm.edu	hg19	1	150390180	150390180	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	RPRD2	NM_015203	exon2	c.C314T	p.P105L	TACTTCCTGAAGC	.	66.0	19.0	77.0	0.0	.	189	.	.	.	none	.	.	PASS	Atlas-SNP
NAV1	89796	hgsc.bcm.edu	hg19	1	201777104	201777104	+	Silent	SNP	G	G	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	NAV1	NM_020443	exon18	c.G3672T	p.A1224A	CAAAGCGTTCAGT	.	155.0	49.0	138.0	0.0	.	143	.	.	.	none	.	.	PASS	Atlas-SNP
CENPF	1063	hgsc.bcm.edu	hg19	1	214819961	214819961	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	CENPF	NM_016343	exon13	c.A7048G	p.T2350A	GCCAGGACAAACC	.	224.0	78.0	164.0	0.0	.	321	.	.	.	none	.	.	PASS	Atlas-SNP
CDC42BPA	8476	hgsc.bcm.edu	hg19	1	227216669	227216669	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	CDC42BPA	NM_003607	exon29	c.A4016G	p.K1339R	TTAAATTTTCTGT	.	35.0	13.0	33.0	0.0	.	528	.	.	.	none	.	.	PASS	Atlas-SNP
PEX13	5194	hgsc.bcm.edu	hg19	2	61258902	61258902	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	PEX13	NM_002618	exon2	c.G441T	p.M147I	GATGATGGATGCT	.	131.0	47.0	77.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
RPIA	22934	hgsc.bcm.edu	hg19	2	89036089	89036089	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	RPIA,face,carcinoma,0,1	RPIA	NM_144563	exon7	c.G634A	p.G212R	CACAAGGGAATCC	.	65.0	22.0	49.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF35	7584	hgsc.bcm.edu	hg19	3	44701072	44701072	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	ZNF35	NM_003420	exon4	c.T1217A	p.I406N	ACCTTATTGTGCA	.	120.0	43.0	80.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
FGF5	2250	hgsc.bcm.edu	hg19	4	81207513	81207513	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	FGF5	NM_004464	exon3	c.G494A	p.R165H	GGGAGCGTTTTCA	.	262.0	18.0	196.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
GSTCD	79807	hgsc.bcm.edu	hg19	4	106746923	106746923	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	GSTCD	NM_001031720	exon8	c.A1496G	p.N499S	AAGCAAATATGGA	.	184.0	60.0	197.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
OTUD4	54726	hgsc.bcm.edu	hg19	4	146063415	146063415	+	Silent	SNP	A	A	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	OTUD4	NM_001102653	exon18	c.T1560A	p.P520P	CACCGCAGGAGTT	.	98.0	32.0	74.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
C5orf42	65250	hgsc.bcm.edu	hg19	5	37183541	37183541	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	C5orf42	NM_023073	exon26	c.C4742T	p.S1581F	TTTCCAGAAAAAC	.	167.0	62.0	190.0	0.0	.	422	.	.	.	none	.	.	PASS	Atlas-SNP
PDE8B	8622	hgsc.bcm.edu	hg19	5	76700575	76700575	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	PDE8B	NM_001029852	exon12	c.G1241A	p.R414K	ACAGGAGGAAAGA	.	77.0	24.0	65.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
APC	324	hgsc.bcm.edu	hg19	5	112154711	112154711	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	APC	NM_001127510	exon11	c.G982T	p.D328Y	GATAAGGATGATA	.	94.0	22.0	41.0	0.0	.	4158	.	.	.	none	.	.	PASS	Atlas-SNP
CDC25C	995	hgsc.bcm.edu	hg19	5	137626353	137626353	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	CDC25C	NM_001790	exon9	c.G839A	p.G280E	AGGTGCCCCTGGT	.	130.0	40.0	99.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHB16	57717	hgsc.bcm.edu	hg19	5	140563836	140563836	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	PCDHB16,NS,carcinoma,0,1	PCDHB16	NM_020957	exon1	c.G1702A	p.G568S	CAGAACGGCTCCG	.	33.0	3.0	45.0	1.0	.	159	.	.	.	none	.	.	PASS	Atlas-SNP
ANKS1A	23294	hgsc.bcm.edu	hg19	6	34950966	34950966	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	ANKS1A	NM_015245	exon6	c.C885A	p.S295R	AAAGAGCCAGCAA	.	68.0	24.0	91.0	0.0	.	123	.	.	.	none	.	.	PASS	Atlas-SNP
IGF2R	3482	hgsc.bcm.edu	hg19	6	160461724	160461724	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	IGF2R	NM_000876	exon11	c.G1448C	p.R483P	AGAAGCGCTATGA	.	48.0	15.0	90.0	0.0	.	251	.	.	.	none	.	.	PASS	Atlas-SNP
KCNH2	3757	hgsc.bcm.edu	hg19	7	150655488	150655488	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	KCNH2	NM_000238	exon4	c.G575T	p.G192V	ACGGCCCCCGGGG	.	187.0	23.0	436.0	0.0	.	157	.	.	.	none	.	.	PASS	Atlas-SNP
MATN2	4147	hgsc.bcm.edu	hg19	8	99015912	99015912	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	MATN2	NM_002380	exon8	c.A1228T	p.K410X	CTGAACAAACCGG	.	104.0	23.0	81.0	0.0	.	165	.	.	.	none	.	.	PASS	Atlas-SNP
TG	7038	hgsc.bcm.edu	hg19	8	133895243	133895243	+	Silent	SNP	T	T	C	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	TG	NM_003235	exon8	c.T1074C	p.C358C	ATCTTGTGGTGGG	.	81.0	28.0	65.0	0.0	.	416	.	.	.	none	.	.	PASS	Atlas-SNP
VPS13A	23230	hgsc.bcm.edu	hg19	9	79862227	79862227	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	VPS13A	NM_001018038	exon20	c.G1953T	p.L651F	TAATTTGAAGGCT	.	251.0	86.0	336.0	0.0	.	735	.	.	.	none	.	.	PASS	Atlas-SNP
DAB2IP	153090	hgsc.bcm.edu	hg19	9	124544633	124544633	+	Silent	SNP	T	T	C	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	DAB2IP	NM_032552	exon16	c.T3342C	p.D1114D	GTTGGATGCCGCC	.	105.0	48.0	147.0	0.0	.	150	.	.	.	none	.	.	PASS	Atlas-SNP
DNAJB12	54788	hgsc.bcm.edu	hg19	10	74095644	74095644	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	DNAJB12	NM_017626	exon8	c.T1154A	p.M385K	TGGTACATATCTG	.	72.0	17.0	84.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
RAG2	5897	hgsc.bcm.edu	hg19	11	36615488	36615488	+	Silent	SNP	A	A	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	RAG2,NS,carcinoma,0,1	RAG2	NM_001243785	exon3	c.T231A	p.T77T	TGTGCAAGTGGCT	.	132.0	39.0	89.0	0.0	.	92	.	.	.	none	.	.	PASS	Atlas-SNP
ASRGL1	80150	hgsc.bcm.edu	hg19	11	62156671	62156671	+	Silent	SNP	A	A	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	ASRGL1	NM_001083926	exon5	c.A558T	p.T186T	CTCCACAGGCGGT	.	81.0	25.0	61.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
PHLDB1	23187	hgsc.bcm.edu	hg19	11	118526375	118526375	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	PHLDB1	NM_001144758	exon21	c.A3935T	p.Y1312F	TGTACTACGACCA	.	42.0	15.0	22.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
H1FNT	341567	hgsc.bcm.edu	hg19	12	48723566	48723566	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	H1FNT	NM_181788	exon1	c.G492A	p.A164A	CAAGGCGGCCAGG	.	93.0	28.0	152.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
FBRSL1	57666	hgsc.bcm.edu	hg19	12	133158030	133158030	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	FBRSL1	NM_001142641	exon14	c.G1969A	p.A657T	GGTGCCGCCCATC	.	124.0	42.0	224.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
GABPB1	2553	hgsc.bcm.edu	hg19	15	50593523	50593523	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	GABPB1	NM_016654	exon5	c.G514C	p.D172H	CAGTGTCAGGACT	.	87.0	33.0	90.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA0101	9768	hgsc.bcm.edu	hg19	15	64668943	64668943	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	KIAA0101	NM_014736	exon3	c.A289T	p.K97X	CTTACTTTCTCTT	.	112.0	28.0	110.0	0.0	.	8	.	.	.	none	.	.	PASS	Atlas-SNP
ABCA3	21	hgsc.bcm.edu	hg19	16	2329051	2329051	+	Silent	SNP	G	G	A	rs367951064	alternate_allele	TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	ABCA3	NM_001089	exon29	c.C4440T	p.Y1480Y	CCGAGCGTACATG	.	89.0	26.0	102.0	0.0	.	176	.	.	.	alt	.	.	PASS	Atlas-SNP
SRCAP	10847	hgsc.bcm.edu	hg19	16	30732250	30732250	+	Silent	SNP	C	C	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	SRCAP	NM_006662	exon20	c.C3204T	p.G1068G	TCCTGGCCCTGTC	.	50.0	6.0	52.0	0.0	.	298	.	.	.	none	.	.	PASS	Atlas-SNP
NFAT5	10725	hgsc.bcm.edu	hg19	16	69724916	69724916	+	Silent	SNP	A	A	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	NFAT5	NM_138713	exon12	c.A1848T	p.P616P	CATACCAAGCAGT	.	227.0	122.0	183.0	0.0	.	184	.	.	.	none	.	.	PASS	Atlas-SNP
KRT25	147183	hgsc.bcm.edu	hg19	17	38907279	38907279	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	KRT25	NM_181534	exon5	c.C884A	p.A295D	TTCCGGGCTGAGG	.	121.0	28.0	83.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
KCNH6	81033	hgsc.bcm.edu	hg19	17	61607776	61607776	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	KCNH6	NM_030779	exon4	c.A548G	p.Q183R	TCCCACAGTTCAC	.	230.0	34.0	291.0	0.0	.	122	.	.	.	none	.	.	PASS	Atlas-SNP
SAP30BP	29115	hgsc.bcm.edu	hg19	17	73700857	73700857	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	SAP30BP	NM_013260	exon9	c.T623G	p.M208R	TTGAGATGGACAA	.	122.0	16.0	111.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF91	7644	hgsc.bcm.edu	hg19	19	23545348	23545348	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	ZNF91	NM_003430	exon4	c.T433C	p.C145R	TGAGACACTGGTT	.	105.0	39.0	129.0	0.0	.	349	.	.	.	none	.	.	PASS	Atlas-SNP
PPFIA3	8541	hgsc.bcm.edu	hg19	19	49631270	49631270	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	PPFIA3	NM_003660	exon2	c.G140T	p.R47L	CGCTGCGCGAGGC	.	8.0	5.0	7.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
PPFIA3	8541	hgsc.bcm.edu	hg19	19	49631271	49631271	+	Silent	SNP	C	C	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	PPFIA3	NM_003660	exon2	c.C141T	p.R47R	GCTGCGCGAGGCA	.	8.0	5.0	8.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
CTSA	5476	hgsc.bcm.edu	hg19	20	44520635	44520635	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	CTSA	NM_000308	exon3	c.A329T	p.D110V	CACTAGATGGGCT	.	30.0	11.0	84.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
KCNQ2	3785	hgsc.bcm.edu	hg19	20	62044846	62044846	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	KCNQ2,NS,carcinoma,0,1	KCNQ2	NM_172107	exon15	c.G1720A	p.G574S	GGTGGCCGGCTGA	.	192.0	70.0	350.0	0.0	.	201	.	.	.	none	.	.	PASS	Atlas-SNP
STIM1	6786	hgsc.bcm.edu	hg19	11	4095775	4095788	+	Frame_Shift_Del	DEL	AAGGTCCATCTGGA	AAGGTCCATCTGGA	-	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	AAGGTCCATCTGGA	AAGGTCCATCTGGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	STIM1	NM_003156	exon7	c.834_847del	p.278_283del	.	.	59.0	15.0	56.0	0.0	.	55	.	0.254237	0	none	.	.	PASS	Atlas-Indel,Pindel
C10orf76	79591	hgsc.bcm.edu	hg19	10	103717456	103717456	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	C10orf76	NM_024541	exon21	c.1530delT	p.N510fs	.	.	52.0	16.0	44.0	0.0	.	48	.	0.307692	0	none	.	.	PASS	Atlas-Indel,Pindel
CCDC146	57639	hgsc.bcm.edu	hg19	7	76883839	76883844	+	In_Frame_Del	DEL	ATCATC	ATCATC	-	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	ATCATC	ATCATC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	CCDC146	NM_020879	exon5	c.465_470del	p.155_157del	.	.	75.0	19.0	43.0	0.0	.	87	.	0.253333	0	none	.	.	PASS	Atlas-Indel,Pindel
ANKRD30A	91074	hgsc.bcm.edu	hg19	10	37478466	37478468	+	In_Frame_Del	DEL	AAT	AAT	-	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	AAT	AAT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	ANKRD30A,NS,carcinoma,0,1	ANKRD30A	NM_052997	exon25	c.2324_2326del	p.775_776del	.	.	309.0	43.0	350.0	0.0	.	448	.	0.139159	0	none	.	.	PASS	Atlas-Indel,Pindel
MLL5	55904	hgsc.bcm.edu	hg19	7	104742528	104742541	+	Frame_Shift_Del	DEL	AATACTGTACTTAC	AATACTGTACTTAC	-	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	AATACTGTACTTAC	AATACTGTACTTAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	MLL5	NM_182931	exon17	c.2082_2095del	p.694_699del	.	.	379.0	92.0	211.0	0.0	.	173	.	0.242744	0	none	.	.	PASS	Atlas-Indel,Pindel
KRTAP5-4	387267	hgsc.bcm.edu	hg19	11	1643025	1643025	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	KRTAP5-4	NM_001012709	exon1	c.300delC	p.G100fs	.	.	189.0	19.0	260.0	0.0	.	78	.	0.100529	0	none	.	.	PASS	Atlas-INDEL
ATP5H	10476	hgsc.bcm.edu	hg19	17	73038343	73038343	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	ATP5H	NM_006356	exon3	c.153delT	p.A51fs	.	.	98.0	50.0	87.0	0.0	.	5	.	0.510204	0	none	.	.	PASS	Atlas-Indel,Pindel
APC2	10297	hgsc.bcm.edu	hg19	19	1465652	1465652	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	APC2	NM_005883	exon15	c.2351delC	p.P784fs	.	.	102.0	28.0	160.0	0.0	.	50	.	0.27451	0	none	.	.	PASS	Atlas-Indel,Pindel
VCPIP1	80124	hgsc.bcm.edu	hg19	8	67577722	67577722	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	VCPIP1	NM_025054	exon1	c.1473delG	p.L491fs	.	.	87.0	34.0	92.0	0.0	.	110	.	0.390805	0	none	.	.	PASS	Atlas-Indel,Pindel
HERC3	8916	hgsc.bcm.edu	hg19	4	89583701	89583701	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	HERC3	NM_014606	exon11	c.1265delC	p.T422fs	.	.	149.0	46.0	125.0	0.0	.	82	.	0.308725	0	none	.	.	PASS	Atlas-Indel,Pindel
ANKRD30A	91074	hgsc.bcm.edu	hg19	10	37442571	37442573	+	In_Frame_Del	DEL	AAT	AAT	-	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	AAT	AAT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	ANKRD30A,colon,carcinoma,0,1	ANKRD30A	NM_052997	exon13	c.1610_1612del	p.537_538del	.	.	675.0	52.0	619.0	0.0	.	448	.	0.077037	0	none	.	.	PASS	Atlas-INDEL
MSH4	4438	hgsc.bcm.edu	hg19	1	76282215	76282218	+	Frame_Shift_Del	DEL	AATA	AATA	-	novel		TCGA-2Z-A9JR-01A-12D-A42J-10	TCGA-2Z-A9JR-10A-01D-A42M-10	AATA	AATA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9a5edc5e-790b-41c7-b1c1-49106b297a3d	dea33a63-ced9-4e0a-a451-ffb60520dc94	.	MSH4	NM_002440	exon6	c.972_975del	p.324_325del	.	.	320.0	66.0	254.0	0.0	.	147	.	0.206	.	none	.	.	PASS	Pindel
