Sean Davis wrote: > On Fri, Jul 11, 2008 at 6:01 AM, Daniel Brewer <daniel.brewer at="" icr.ac.uk=""> wrote: >> Hi, >> >> Not strictly bioconductor related, so apologies, but I was wondering >> whether anyone knew of a good all encompassing small RNAs database. I >> would like to find all small RNAs (RNAis etc.) within a particular >> genomic region. > > I would take a look at the UCSC genome browser track for small RNAs, > which includes snoRNAs as well as miRNAs (and a few others). I do not > know of another resource that combines all the data this way. It is > quite easy to make a custom track that includes your regions of > interest and to then extract using the table browser the information > that overlaps your custom track. Alternatively, you can download the > entire track (I think it is the wgRNA table, if I remember correctly) > and process in R. And of course there is the new-ish rtracklayer package that can help you to do most of that.. best wishes Robert > > Sean > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor > -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 PO Box 19024 Seattle, Washington 98109-1024 206-667-7700 rgentlem at fhcrc.org