UCSC Isoform ID conversion
I want to convert the UCSC transcript IDs to the Refseq or Entrez gene/Transcript ID. I tried BioMart, but it failed.
For example I want to convert :
uc011lsn.1
uc010unu.1
uc010uoa.1
uc002bgz.2
uc001jiu.2
to the IDs like: NM_130786
Does anyone knows any tools or R package to handle this ?
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In what way did BioMart fail? What species are these IDs from?
it's for human. it couldn't find anything which I put the ucsc ids .
You can certainly filter by ID list, choosing UCSC IDs as your option, but these IDs must be dodgy because none of them are giving any results.
Check out my answer How To Map Ucsc Mrna Isoforms To Gene ?