On 7/15/11 2:27 AM, Vanessa Kirkup Swing wrote: > Hi Meharji, > > We have a track for snp131 on the genome preview browser. Just keep in > mind that tracks on the preview browser have not undergone thorough > testing and may change: > > http://genome-preview.ucsc.edu/cgi-bin/hgGateway?org=Dog&db=canFam2&hgsid=2566535 > > You may also download the data by using the Table Browser on genome-preview: > > http://genome-preview.ucsc.edu/cgi-bin/hgTables > > Select canFam2, group: Variation and repeats, track: snp131, table: > snp131. You can select various output formats. Downloading the whole > db131 table in BED format is about 28.3 MB in size. > > If you have additional questions, please contact the mailing list: > [email protected]. > > Vanessa Kirkup Swing > UCSC Genome Bioinformatics Group > > > ---------- Forwarded message ---------- > From: Meharji Arumilli<[email protected]> > Date: Thu, Jul 14, 2011 at 4:16 AM > Subject: [Genome] dbSNP for canFam2 > To: [email protected] > > > Hi, > > I working with dog sequencing data and using canFam2 build for my work. > I am in need of dbSNP database for canFam2 build which i cannot find in > the databases present in canFam2. I could find it in canFam1 but not in > canFam2. Could you please recommend anything regarding this or is there > any option available to convert dbSNP from canFam1 to canFam2 ? Looking > forward to hearing from you at the latest. > > Thank you > > > Best regards > mehar > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome Thanks for your reply. I have downloaded the data from the link,
http://genome-preview.ucsc.edu/cgi-bin/hgTables But the data in canFam2 snp 131 contains only six columns(does not have reference allele, observed allele....) whereas the data in canFam1 snp125 contains 16 columns. For my work i need the data in the format which is exactly present in snp125, any help regarding this would be appreciated. Looking forward to hearing from you. _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
