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
CLCN6	1185	hgsc.bcm.edu	hg19	1	11888206	11888206	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	CLCN6	NM_001286	exon11	c.G884A	p.R295H	TCTTCCGTTCTGG	.	990.0	54.0	636.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
FGR	2268	hgsc.bcm.edu	hg19	1	27943508	27943508	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	FGR	NM_001042729	exon7	c.C542T	p.S181F	GACAGGGAGTAGG	.	225.0	128.0	183.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
PABPC4	8761	hgsc.bcm.edu	hg19	1	40038244	40038244	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	PABPC4	NM_001135653	exon2	c.G208T	p.D70Y	TGGTGTCCAAAGC	.	118.0	35.0	177.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
CACNA1S	779	hgsc.bcm.edu	hg19	1	201039482	201039482	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	CACNA1S	NM_000069	exon17	c.C2278T	p.P760S	CCAGGGGACGTGG	.	385.0	121.0	250.0	0.0	.	249	.	.	.	none	.	.	PASS	Atlas-SNP
MYCN	4613	hgsc.bcm.edu	hg19	2	16086058	16086058	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	MYCN	NM_005378	exon3	c.G1234C	p.V412L	GAGTTGGTAAAGA	.	496.0	163.0	304.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
C2orf80	389073	hgsc.bcm.edu	hg19	2	209045533	209045533	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	C2orf80	NM_001099334	exon6	c.T302G	p.I101S	ATCGGGATACTGT	.	86.0	26.0	133.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
MON1A	84315	hgsc.bcm.edu	hg19	3	49946456	49946456	+	Silent	SNP	G	G	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	MON1A	NM_032355	exon6	c.C1950T	p.L650L	ATAGGTGAGGGGC	.	126.0	38.0	68.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
TMF1	7110	hgsc.bcm.edu	hg19	3	69096707	69096707	+	Silent	SNP	T	T	C	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	TMF1	NM_007114	exon2	c.A1149G	p.T383T	AACTAATGTTTCA	.	106.0	42.0	229.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
ZBTB11	27107	hgsc.bcm.edu	hg19	3	101370247	101370247	+	Missense_Mutation	SNP	T	T	G	rs374150569	alternate_allele	TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	ZBTB11	NM_014415	exon11	c.A2925C	p.Q975H	GCTTTCTTGTTCC	.	258.0	75.0	421.0	1.0	.	77	.	.	.	alt	.	.	PASS	Atlas-SNP
PVRL3	25945	hgsc.bcm.edu	hg19	3	110830989	110830989	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	PVRL3	NM_001243286	exon2	c.G273A	p.W91X	TTCATGGGAGAAG	.	13.0	4.0	178.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
PIGZ	80235	hgsc.bcm.edu	hg19	3	196675120	196675120	+	Silent	SNP	A	A	T	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	PIGZ	NM_025163	exon3	c.T648A	p.L216L	GCCTCCAAGAAGC	.	271.0	114.0	139.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
RFC1	5981	hgsc.bcm.edu	hg19	4	39325032	39325032	+	Silent	SNP	C	C	T	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	RFC1	NM_002913	exon7	c.G648A	p.E216E	CTGCCTCTCCAGC	.	33.0	12.0	169.0	0.0	.	114	.	.	.	none	.	.	PASS	Atlas-SNP
UGT2B7	7364	hgsc.bcm.edu	hg19	4	69968643	69968643	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	UGT2B7	NM_001074	exon3	c.A989T	p.Q330L	TGGCCCAGATCCC	.	51.0	17.0	438.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
ANTXR2	118429	hgsc.bcm.edu	hg19	4	80992809	80992809	+	Splice_Site	SNP	C	C	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	ANTXR2	NM_058172	exon3	c.153-1G>T	.	CCAGACCTGAAAG	.	79.0	21.0	112.0	0.0	.	97	.	.	.	none	.	.	PASS	Atlas-SNP
STPG2	285555	hgsc.bcm.edu	hg19	4	98865112	98865112	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	.	NM_174952	exon8	c.A980C	p.N327T	GTCAAGTTAGGTA	.	29.0	9.0	329.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
NPY2R	4887	hgsc.bcm.edu	hg19	4	156136059	156136059	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	NPY2R	NM_000910	exon2	c.T968G	p.L323R	ATCCCCTTCTCTA	.	247.0	84.0	159.0	0.0	.	87	.	.	.	none	.	.	PASS	Atlas-SNP
CDH9	1007	hgsc.bcm.edu	hg19	5	26906161	26906161	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	CDH9,NS,carcinoma,0,4	CDH9	NM_016279	exon5	c.G718A	p.D240N	CCATGTCTTTGGC	.	54.0	12.0	282.0	0.0	.	305	.	.	.	none	.	.	PASS	Atlas-SNP
ANKHD1	54882	hgsc.bcm.edu	hg19	5	139908303	139908303	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	ANKHD1-EIF4EBP3,NS,carcinoma,0,2	ANKHD1	NM_017747	exon29	c.G5772C	p.E1924D	CTCAGAGTCTGCT	.	54.0	4.0	159.0	0.0	.	233	.	.	.	none	.	.	PASS	Atlas-SNP
MED7	9443	hgsc.bcm.edu	hg19	5	156565887	156565887	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	MED7	NM_001100816	exon2	c.A556C	p.T186P	GTTCAGTTTTTAC	.	121.0	45.0	267.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
SLC22A16	85413	hgsc.bcm.edu	hg19	6	110757106	110757106	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	SLC22A16	NM_033125	exon6	c.C1370T	p.A457V	CCAAATGCTGCCC	.	125.0	39.0	185.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
SYNJ2	8871	hgsc.bcm.edu	hg19	6	158449969	158449969	+	Silent	SNP	A	A	T	rs140060886	alternate_allele	TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	SYNJ2	NM_003898	exon3	c.A396T	p.S132S	TTTCTCATGGCCA	.	235.0	70.0	133.0	0.0	.	111	.	.	.	alt	A|1.000;G|0.000	.	PASS	Atlas-SNP
NOD1	10392	hgsc.bcm.edu	hg19	7	30475651	30475651	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	NOD1	NM_006092	exon11	c.A2584T	p.R862W	GGGCCCTCGCAAG	.	173.0	52.0	123.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
EIF4H	7458	hgsc.bcm.edu	hg19	7	73601993	73601993	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	EIF4H	NM_022170	exon2	c.A112G	p.T38A	TTGCCCACAGAGC	.	422.0	133.0	296.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
POR	5447	hgsc.bcm.edu	hg19	7	75615481	75615481	+	Missense_Mutation	SNP	A	A	G	rs72557954		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	POR	NM_000941	exon15	c.A1820G	p.Y607C	AGGTCTACGTCCA	.	41.0	19.0	28.0	0.0	.	46	.	.	.	weak	A|0.999;G|0.001	0.001	PASS	Atlas-SNP
BAIAP2L1	55971	hgsc.bcm.edu	hg19	7	97933661	97933661	+	Silent	SNP	G	G	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	BAIAP2L1,NS,carcinoma,0,1	BAIAP2L1	NM_018842	exon12	c.C1269T	p.T423T	GTTCACGGTGCTG	.	245.0	50.0	99.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
ANKRD7	56311	hgsc.bcm.edu	hg19	7	117879989	117879989	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	ANKRD7	NM_019644	exon6	c.C739A	p.H247N	GCGAGCCATGGAA	.	221.0	31.0	88.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
PRKAG2	51422	hgsc.bcm.edu	hg19	7	151262972	151262972	+	Splice_Site	SNP	C	C	T	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	PRKAG2	NM_016203	exon13	c.1234-1G>A	.	AGACATCTAAACG	.	87.0	31.0	151.0	0.0	.	86	.	.	.	none	.	.	PASS	Atlas-SNP
FAM84B	157638	hgsc.bcm.edu	hg19	8	127569250	127569250	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	FAM84B	NM_174911	exon2	c.C385G	p.Q129E	GGTACTGAGCCTG	.	156.0	43.0	109.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
SPATA31E1	286234	hgsc.bcm.edu	hg19	9	90501484	90501484	+	Silent	SNP	C	C	T	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	.	NM_178828	exon4	c.C2082T	p.T694T	GAAGACCGGGTTC	.	234.0	65.0	160.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
NUP214	8021	hgsc.bcm.edu	hg19	9	134010301	134010301	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	NUP214	NM_005085	exon8	c.A848T	p.H283L	AAAAGCACCCAGA	.	57.0	17.0	111.0	0.0	.	166	.	.	.	none	.	.	PASS	Atlas-SNP
FAM45A	404636	hgsc.bcm.edu	hg19	10	120879873	120879873	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	FAM45A	NM_207009	exon5	c.A502T	p.M168L	TTTGGAATGGAAA	.	137.0	42.0	121.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
TRIM48	79097	hgsc.bcm.edu	hg19	11	55032729	55032729	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	TRIM48	NM_024114	exon2	c.G398T	p.S133I	GCTCCAGCTCTCA	.	16.0	8.0	54.0	0.0	.	149	.	.	.	none	.	.	PASS	Atlas-SNP
COX8A	1351	hgsc.bcm.edu	hg19	11	63743765	63743765	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	COX8A	NM_004074	exon2	c.C183G	p.H61Q	GTCACACCTGGAG	.	522.0	139.0	314.0	0.0	.	6	.	.	.	none	.	.	PASS	Atlas-SNP
SCYL1	57410	hgsc.bcm.edu	hg19	11	65305494	65305494	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	SCYL1	NM_020680	exon16	c.G2088A	p.W696X	CAGCTGGGAAGCT	.	45.0	18.0	35.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
IGSF9B	22997	hgsc.bcm.edu	hg19	11	133805658	133805658	+	Splice_Site	SNP	C	C	T	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	IGSF9B	NM_014987	exon8	c.822-1G>A	.	AGGTCGCTGCAAA	.	60.0	32.0	63.0	0.0	.	290	.	.	.	none	.	.	PASS	Atlas-SNP
PPFIA2	8499	hgsc.bcm.edu	hg19	12	81661720	81661720	+	Silent	SNP	A	A	G	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	PPFIA2	NM_001220473	exon28	c.T3457C	p.L1153L	GTAATAATAAAGC	.	32.0	8.0	33.0	0.0	.	207	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF10	7556	hgsc.bcm.edu	hg19	12	133732280	133732280	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	ZNF10	NM_015394	exon5	c.G448C	p.V150L	AGGCAAGTGGCAT	.	43.0	10.0	148.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
IL17D	53342	hgsc.bcm.edu	hg19	13	21295994	21295994	+	Silent	SNP	C	C	T	rs372465901	alternate_allele	TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	IL17D	NM_138284	exon3	c.C510T	p.V170V	CTGCGTCCCCGAG	.	209.0	72.0	104.0	0.0	.	4	.	.	.	alt	.	.	PASS	Atlas-SNP
FAM161B	145483	hgsc.bcm.edu	hg19	14	74416885	74416885	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	FAM161B	NM_152445	exon1	c.A34G	p.T12A	GCAAGGTTCGTTT	.	22.0	11.0	21.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
IGF1R	3480	hgsc.bcm.edu	hg19	15	99465632	99465632	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	IGF1R	NM_000875	exon11	c.C2457A	p.N819K	CTCCAACTTCGTC	.	350.0	122.0	209.0	0.0	.	147	.	.	.	none	.	.	PASS	Atlas-SNP
MKL2	57496	hgsc.bcm.edu	hg19	16	14346228	14346228	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	MKL2	NM_014048	exon15	c.T2422G	p.S808A	CCTAGTTCACCCC	.	246.0	70.0	208.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
BFAR	51283	hgsc.bcm.edu	hg19	16	14755800	14755800	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	BFAR	NM_016561	exon6	c.C835G	p.P279A	AGCTCCCCCAGGC	.	478.0	175.0	325.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
GPRC5B	51704	hgsc.bcm.edu	hg19	16	19884048	19884048	+	Silent	SNP	G	G	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	GPRC5B	NM_016235	exon2	c.C120T	p.D40D	GAGGAGGTCCAGC	.	207.0	82.0	115.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
BCL7C	9274	hgsc.bcm.edu	hg19	16	30899187	30899187	+	Silent	SNP	C	C	T	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	BCL7C	NM_004765	exon6	c.G653A	p.X218X	GCTTCTCAGGGGT	.	677.0	259.0	404.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF423	23090	hgsc.bcm.edu	hg19	16	49671278	49671278	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	ZNF423	NM_015069	exon4	c.C1785A	p.H595Q	CTTGCTGTGGGCC	.	318.0	99.0	150.0	0.0	.	463	.	.	.	none	.	.	PASS	Atlas-SNP
BBS2	583	hgsc.bcm.edu	hg19	16	56531663	56531663	+	Silent	SNP	G	G	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	BBS2	NM_031885	exon14	c.C1789T	p.L597L	TAACTAGCACCTT	.	75.0	31.0	282.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
ZC3H18	124245	hgsc.bcm.edu	hg19	16	88653023	88653023	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	ZC3H18	NM_144604	exon3	c.G619T	p.E207X	CTGGAAGAAGGTG	.	166.0	40.0	93.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
MINK1	50488	hgsc.bcm.edu	hg19	17	4800540	4800540	+	Silent	SNP	T	T	G	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	MINK1	NM_153827	exon32	c.T3957G	p.V1319V	CCAAGTTTACTTC	.	96.0	26.0	72.0	0.0	.	110	.	.	.	none	.	.	PASS	Atlas-SNP
YBX2	51087	hgsc.bcm.edu	hg19	17	7193332	7193332	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	YBX2	NM_015982	exon6	c.G803T	p.G268V	TCATCTCCCTGCT	.	274.0	112.0	151.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
SPEM1	374768	hgsc.bcm.edu	hg19	17	7324267	7324267	+	Silent	SNP	C	C	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	SPEM1	NM_199339	exon3	c.C273A	p.V91V	TGCAGTCCATCTT	.	335.0	133.0	176.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
NCOR1	9611	hgsc.bcm.edu	hg19	17	15964734	15964734	+	Silent	SNP	A	A	G	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	NCOR1	NM_006311	exon37	c.T5862C	p.S1954S	GTCTGAACTTTGA	.	325.0	87.0	367.0	0.0	.	240	.	.	.	none	.	.	PASS	Atlas-SNP
PLEKHH3	79990	hgsc.bcm.edu	hg19	17	40821477	40821477	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	PLEKHH3	NM_024927	exon12	c.G2176T	p.E726X	GGCTCTCTCCCAC	.	114.0	48.0	68.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
TIMM44	10469	hgsc.bcm.edu	hg19	19	8002997	8002997	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	TIMM44	NM_006351	exon3	c.A227T	p.E76V	TTCATTTCTTTGT	.	485.0	164.0	319.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
OR7E24	26648	hgsc.bcm.edu	hg19	19	9362275	9362275	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	OR7E24	NM_001079935	exon1	c.T556G	p.C186G	CTCACCTGCTTCA	.	47.0	12.0	107.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
UPF1	5976	hgsc.bcm.edu	hg19	19	18963808	18963808	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	UPF1	NM_002911	exon7	c.A985G	p.I329V	GATAACATCACTG	.	287.0	92.0	231.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
HSD17B14	51171	hgsc.bcm.edu	hg19	19	49316535	49316535	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	HSD17B14	NM_016246	exon9	c.T710G	p.F237C	GTGCAGAAGTTGG	.	46.0	22.0	18.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
NKX2-4	644524	hgsc.bcm.edu	hg19	20	21376576	21376576	+	Silent	SNP	G	G	T	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	NKX2-4	NM_033176	exon2	c.C1038A	p.A346A	CAGGTTGGCGCCC	.	105.0	30.0	63.0	0.0	.	7	.	.	.	none	.	.	PASS	Atlas-SNP
ACTR5	79913	hgsc.bcm.edu	hg19	20	37400319	37400319	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	ACTR5	NM_024855	exon9	c.G1684C	p.G562R	AAGGGAGGAGAGT	.	187.0	75.0	123.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
ZNFX1	57169	hgsc.bcm.edu	hg19	20	47864026	47864026	+	Silent	SNP	G	G	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	ZNFX1	NM_021035	exon14	c.C5535T	p.H1845H	GAACCAGTGACCA	.	225.0	81.0	142.0	0.0	.	194	.	.	.	none	.	.	PASS	Atlas-SNP
ZNFX1	57169	hgsc.bcm.edu	hg19	20	47864027	47864027	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	ZNFX1	NM_021035	exon14	c.A5534C	p.H1845P	AACCAGTGACCAC	.	229.0	85.0	142.0	0.0	.	194	.	.	.	none	.	.	PASS	Atlas-SNP
ZRSR2	8233	hgsc.bcm.edu	hg19	X	15841260	15841260	+	Silent	SNP	C	C	G	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	ZRSR2	NM_005089	exon11	c.C1344G	p.R448R	GAGCCGCAGGAGC	.	50.0	5.0	31.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
SHROOM4	57477	hgsc.bcm.edu	hg19	X	50350751	50350751	+	Missense_Mutation	SNP	G	G	C	rs201290098		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	SHROOM4	NM_020717	exon6	c.C3391G	p.Q1131E	CCTCCTGTTGCTT	.	101.0	5.0	55.0	0.0	.	171	.	.	.	weak	.	.	PASS	Atlas-SNP
ATP6	0	hgsc.bcm.edu	hg19	MT	9010	9010	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	.	ENST00000361899	exon1	c.G484A	p.A162T	CTAACCGCTAACA	.	44.0	42.0	13.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
SEC16A	9919	hgsc.bcm.edu	hg19	9	139369195	139369195	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	SEC16A	NM_014866	exon3	c.2874delT	p.P958fs	.	.	213.0	76.0	104.0	0.0	.	249	.	0.356808	0	none	.	.	PASS	Atlas-INDEL
LCLAT1	253558	hgsc.bcm.edu	hg19	2	30863165	30863173	+	In_Frame_Del	DEL	GAAGAGAAA	GAAGAGAAA	-	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	GAAGAGAAA	GAAGAGAAA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	LCLAT1	NM_182551	exon7	c.924_932del	p.308_311del	.	.	186.0	23.0	220.0	0.0	.	51	.	0.123656	0	none	.	.	PASS	Atlas-INDEL
LRRC4C	57689	hgsc.bcm.edu	hg19	11	40136626	40136630	+	Frame_Shift_Del	DEL	AGCAC	AGCAC	-	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	AGCAC	AGCAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	LRRC4C,NS,carcinoma,0,1	LRRC4C	NM_020929	exon5	c.1214_1218del	p.405_406del	.	.	222.0	50.0	484.0	0.0	.	190	.	0.225225	0	none	.	.	PASS	Atlas-INDEL
MAT2A	4144	hgsc.bcm.edu	hg19	2	85769094	85769097	+	In_Frame_Del	DEL	AAGT	AAGT	-	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	AAGT	AAGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	MAT2A	NM_005911	exon5	c.547_549del	p.183_183del	.	.	52.0	13.0	153.0	0.0	.	23	.	0.25	0	none	.	.	PASS	Atlas-INDEL
CA6	765	hgsc.bcm.edu	hg19	1	9009376	9009376	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	CA6	NM_001270500	exon2	c.133delC	p.Q45fs	.	.	153.0	59.0	80.0	0.0	.	47	.	0.385621	0	none	.	.	PASS	Atlas-INDEL
SLC16A13	201232	hgsc.bcm.edu	hg19	17	6942168	6942169	+	In_Frame_Ins	INS	-	-	ATA	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	SLC16A13	NM_201566	exon3	c.1041_1042insATA	p.M347delinsMI	.	.	467.0	118.0	309.0	0.0	.	28	.	0.252677	0	none	.	.	PASS	Atlas-INDEL
C3orf17	25871	hgsc.bcm.edu	hg19	3	112736366	112736368	+	In_Frame_Del	DEL	CAT	CAT	-	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	CAT	CAT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	C3orf17	NM_015412	exon2	c.189_191del	p.63_64del	.	.	86.0	23.0	162.0	0.0	.	37	.	0.267442	0	none	.	.	PASS	Atlas-INDEL
ITGA7	3679	hgsc.bcm.edu	hg19	12	56096870	56096870	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	ITGA7	NM_002206	exon2	c.300delG	p.E100fs	.	.	363.0	130.0	250.0	0.0	.	194	.	0.358127	0	none	.	.	PASS	Atlas-INDEL
PABPC4	8761	hgsc.bcm.edu	hg19	1	40038242	40038242	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	PABPC4	NM_001135653	exon2	c.211delA	p.T71fs	.	.	117.0	34.0	179.0	0.0	.	56	.	0.290598	0	none	.	.	PASS	Atlas-INDEL
FGF3	2248	hgsc.bcm.edu	hg19	11	69625463	69625464	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	FGF3	NM_005247	exon3	c.330_331insA	p.H110fs	.	.	174.0	54.0	132.0	0.0	.	27	.	0.310345	0	none	.	.	PASS	Atlas-INDEL
MZT2A	653784	hgsc.bcm.edu	hg19	2	132249519	132249520	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	MZT2A	NM_001085365	exon2	c.249_250insT	p.Q83fs	.	.	49.0	17.0	38.0	0.0	.	6	.	0.346939	0	none	.	.	PASS	Atlas-INDEL
RAB11B	9230	hgsc.bcm.edu	hg19	19	8468330	8468331	+	Frame_Shift_Del	DEL	CA	CA	-	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	CA	CA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	RAB11B	NM_004218	exon5	c.544_545del	p.182_182del	.	.	255.0	75.0	178.0	0.0	.	15	.	0.294118	0	none	.	.	PASS	Atlas-INDEL
CEP250	11190	hgsc.bcm.edu	hg19	20	34091451	34091451	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	CEP250	NM_007186	exon30	c.5253delC	p.L1751fs	.	.	311.0	105.0	166.0	0.0	.	141	.	0.337621	0	none	.	.	PASS	Atlas-INDEL
KIAA1033	23325	hgsc.bcm.edu	hg19	12	105512257	105512259	+	In_Frame_Del	DEL	GTG	GTG	-	novel		TCGA-B9-4116-01A-01D-1252-08	TCGA-B9-4116-10A-01D-1252-08	GTG	GTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	847c8d58-eb11-487b-bc85-d58a4d47fae7	21d19fa5-2fc4-4abc-8810-947be94de078	.	KIAA1033	NM_015275	exon7	c.468_470del	p.156_157del	.	.	36.0	11.0	194.0	0.0	.	83	.	0.305556	0	none	.	.	PASS	Atlas-INDEL
