[BioC] Human, Mouse and Rat homologs

[Wolfgang Huber]

Dear David

one of the possible solutions is via the BioMart interface to the 
Ensembl databases. Please check the getLDS function in the biomaRt 
package, which is described in that package's vignette.

	Best wishes
	Wolfgang

  Lyon scripsit 20/05/10 04:54:
> If I had a file containing a list of Human:
>
> 1)Refseq IDs:
>
> "probe_id" "accession"
> "1" "8039748" "NM_130786"
> "2" "8039748" "NP_570602"
> "3" "7960947" "NM_000014"
> "4" "7960947" "NP_000005"
> "5" "8144857" "NM_000662"
> "6" "8144857" "NM_001160170"
>
> Or
>
> 2)Ensemble genes:
>
> "probe_id" "ensembl_id"
> "1" "8039748" "ENSG00000121410"
> "2" "7960947" "ENSG00000175899"
> "3" "8144857" "ENSG00000171428"
> "4" "8144866" "ENSG00000156006"
> "5" "7976496" "ENSG00000196136"
> "6" "8083415" "ENSG00000114771"
>
>
> which R package does the conversion of the list of IDs to find the Mouse homologs and can someone type the exact command?
>
> Thank you for your consideration.
>
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-- 


Wolfgang Huber
EMBL
http://www.embl.de/research/units/genome_biology/huber