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	Algorithm
RPN1	6184	hgsc.bcm.edu	37	3	128344482	128344482	+	Silent	SNP	G	G	A	novel		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	.	.	NM_002950	exon8	c.C1290T	p.F430F	CTTGTTGAACGTG	.	84.0	24.0	66.0	0.0	.	.	.	Atlas-SNP
MUC1	4582	hgsc.bcm.edu	37	1	155161884	155161884	+	Silent	SNP	G	G	T	novel		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	.	.	NM_001204286	exon2	c.C276A	p.A92A	TTCCGTGGCCGGG	.	121.0	5.0	68.0	0.0	.	.	.	Atlas-SNP
ZNF74	7625	hgsc.bcm.edu	37	22	20759727	20759727	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	.	.	NM_003426	exon5	c.A404T	p.Q135L	CGGCCCAGGAGCC	.	196.0	23.0	108.0	0.0	.	.	.	Atlas-SNP
KRTAP5-5	439915	hgsc.bcm.edu	37	11	1651442	1651442	+	Silent	SNP	G	G	C	novel		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	KRTAP5-5,bladder,carcinoma,0,4	KRTAP5-5	NM_001001480	exon1	c.G372C	p.G124G	TGGGGGGTCCAAG	.	47.0	6.0	37.0	2.0	.	0	4	Atlas-SNP
SON	6651	hgsc.bcm.edu	37	21	34923934	34923934	+	Silent	SNP	T	T	C	rs200724919		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	SON_ENST00000300278,NS,carcinoma,0,4	SON_ENST00000300278	NM_032195	exon3	c.T2397C	p.S799S	AACCAGTTCCATG	.	152.0	8.0	84.0	2.0	.	0	4	Atlas-SNP
MEF2A	4205	hgsc.bcm.edu	37	15	100211846	100211846	+	Missense_Mutation	SNP	G	G	A	rs75705863	bycluster	TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	MEF2A_ENST00000354410,NS,carcinoma,+1,1	MEF2A_ENST00000354410	NM_005587	exon5	c.G380A	p.R127Q	TGATGCGGAATCA	.	49.0	2.0	14.0	0.0	.	+1	1	Atlas-SNP
PTPRZ1	5803	hgsc.bcm.edu	37	7	121682713	121682713	+	Silent	SNP	G	G	A	novel		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	.	.	NM_002851	exon22	c.G5853A	p.Q1951Q	GTTGCAGCAGATT	.	133.0	34.0	160.0	0.0	.	.	.	Atlas-SNP
HPR	3250	hgsc.bcm.edu	37	16	72110949	72110949	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	.	.	NM_020995	exon5	c.A1016G	p.H339R	TCCAGCACTGGGT	.	63.0	13.0	61.0	0.0	.	.	.	Atlas-SNP
CHST5	23563	hgsc.bcm.edu	37	16	75563575	75563575	+	Silent	SNP	C	C	T	novel		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	CHST5,NS,carcinoma,-2,1	CHST5	NM_024533	exon3	c.G708A	p.A236A	CGGGCCCGCCGCC	.	47.0	9.0	32.0	0.0	.	-2	1	Atlas-SNP
ALDOA	226	hgsc.bcm.edu	37	16	30080966	30080966	+	Silent	SNP	G	G	A	novel		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	.	.	NM_001243177	exon8	c.G933A	p.L311L	AGCGCTGCGCCGC	.	33.0	13.0	46.0	0.0	.	.	.	Atlas-SNP
CHRNA1	1134	hgsc.bcm.edu	37	2	175614728	175614728	+	Silent	SNP	G	G	A	rs141733086	byfrequency;alternate_allele	TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	.	.	NM_001039523	exon8	c.C1023T	p.I341I	TGTGTTGATGACG	.	145.0	39.0	102.0	0.0	.	.	.	Atlas-SNP
MARS	4141	hgsc.bcm.edu	37	12	57883693	57883693	+	Silent	SNP	A	A	G	novel		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	.	.	NM_004990	exon5	c.A429G	p.L143L	ATCTCTAGCCGAC	.	234.0	45.0	126.0	0.0	.	.	.	Atlas-SNP
SRRM2	23524	hgsc.bcm.edu	37	16	2819139	2819139	+	Silent	SNP	C	C	T	novel		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	.	.	NM_016333	exon12	c.C7875T	p.S2625S	CTCCTCCTCTTCT	.	89.0	5.0	69.0	0.0	.	.	.	Atlas-SNP
SART1	9092	hgsc.bcm.edu	37	11	65733919	65733919	+	Silent	SNP	G	G	A	novel		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	.	.	NM_005146	exon9	c.G1080A	p.L360L	TGGCCTGCGGGAG	.	82.0	36.0	50.0	0.0	.	.	.	Atlas-SNP
GDF10	2662	hgsc.bcm.edu	37	10	48429456	48429456	+	Missense_Mutation	SNP	G	G	C	rs139712067	alternate_allele	TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	.	.	NM_004962	exon2	c.C430G	p.R144G	GCGCTCGAGGCCA	.	69.0	22.0	68.0	0.0	.	.	.	Atlas-SNP
LURAP1L	286343	hgsc.bcm.edu	37	9	12775864	12775864	+	Silent	SNP	C	C	T	novel		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	.	.	NM_203403	exon1	c.C150T	p.G50G	TGGTGGCGGCGGC	.	69.0	7.0	48.0	0.0	.	.	.	Atlas-SNP
UBXN11	91544	hgsc.bcm.edu	37	1	26608877	26608877	+	Silent	SNP	G	G	A	rs1134582	byfrequency	TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	UBXN11,NS,carcinoma,0,2	UBXN11	NM_183008	exon16	c.C1476T	p.G492G	ACTGGGGCCGGGA	.	20.0	11.0	6.0	2.0	0.130	0	2	Atlas-SNP
MARK2	2011	hgsc.bcm.edu	37	11	63662685	63662685	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	.	.	NM_001163296	exon2	c.G109A	p.G37S	ATTCGGGGCCGCA	.	93.0	16.0	79.0	0.0	.	.	.	Atlas-SNP
ATAD2	29028	hgsc.bcm.edu	37	8	124382161	124382161	+	Missense_Mutation	SNP	A	A	T	rs200740522		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	.	.	NM_014109	exon7	c.T831A	p.D277E	ATCTTCATCATCA	.	110.0	5.0	81.0	0.0	.	.	.	Atlas-SNP
REREP3	646396	hgsc.bcm.edu	37	15	22546705	22546705	+	RNA	SNP	G	G	T	novel		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	.	.	.	.	.	.	GCTGCCGTTCACC	.	33.0	7.0	29.0	0.0	.	.	.	Atlas-SNP
FLJ36000	0	hgsc.bcm.edu	37	17	21904891	21904891	+	RNA	SNP	T	T	C	novel		TCGA-2G-AALN-01A-11D-A42Y-10	TCGA-2G-AALN-10A-01D-A433-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	540debee-4ab6-4a72-a38d-21a2f4f90905	b8f3aa4c-e160-4a5a-a935-b66ecb5011f2	.	.	.	.	.	.	GAACGCTGGCCTC	.	57.0	8.0	42.0	0.0	.	.	.	Atlas-SNP
