[BioC] yeast2 LOCUSID environment
jzhang at jimmy.harvard.edu
Wed Jun 7 15:30:01 CEST 2006
>I was just wondering why there is no "LOCUSID" environment associated
>with the yeast2 annotation package. I know from looking up some S.
>cerevisiae genes by hand on the Entrez Gene website that yeast genes
>do have the Entrez accession numbers. The lack of this environment
>for the yeast2 package makes it difficult to use functions like
>GOHyperG that depend on the presence of the LOCUSID environment.
>Could someone enlighten me on this?
The yeast annotation data package uses data from the YeastGenome database. When
the code for building the package was written, it did not appear to be a clean
way of mapping the probes to Entrez Gene ids. I checked the YeastGenome web
site this morning and found that mappings between ORFs and NCBI RefSeq ids are
available now. So, it seems to be possible to include a LOCUSID environment but
someone has to spend a few hours to create it and make it right.
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