Hi Vanessa, Thanks so much for your quick response (and sorry for my slow one!).
The URL is http://hgdownload.cse.ucsc.edu/goldenPath/hg19/bigZips/ This contains the upstream1000.fa.gz file. The names are in RefSeq accession numbers, and the only keys I can find must be from different versions because not all genes are covered (I am looking for the HUGO symbol). I was hoping you guys might have a file that could easily be merged with the RefSeq accession numbers as opposed to compiling my own from various versions of RefSeq Id's. Thank you. Danielle Quoting Vanessa Kirkup Swing <[email protected]>: > Hi Danielle, > > Can you please provide us with more information so that we can > understand your issue such as the link to the file > (upstream1000.fa.gz), which genome and assembly this file is from and > which RefSeq IDs you are referring to? Please respond to the mailing > list: [email protected]. Thanks! > > Vanessa Kirkup Swing > UCSC Genome Bioinformatics Group > > ---------- Forwarded message ---------- > From: <[email protected]> > Date: Thu, Sep 29, 2011 at 12:15 PM > Subject: [Genome] Fasta Sequence > To: [email protected] > > > Good Afternoon. > > When working with the file "upstream1000.fa.gz" I have been able to > use it for analysis and it is in a great format, however, I was > wondering if you had the conversion for RefSeq ID to Gene Symbol Id. > The reason I ask is all of the databases I can find have updated > RefSeq ID's (of which only 5000 match), so I am unable to translate > easily. I have a program for analysis, so if you have the upstream > file with updated RefSeq ID's that would also be great. > > Thank you. > > Danielle Barnes > [email protected] > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
