Hi Gundula, This should be possible with biomaRt for the species present in Ensembl. You might need to do a few queries though. Here's an example. human = useMart("ensembl",dataset="hsapiens_gene_ensembl") orth = getBM(c("ensembl_gene_id","zebrafish_ensembl_gene","zebrafish_ortholog y_type","zebrafish_percent_identity","xenopus_ensembl_gene","xenopus_o rthology_type","xenopus_percent_identity"), filters="ensembl_gene_id",values = c("ENSG00000213281","ENSG00000171862"), mart = human) Given two human ensembl gene identifiers, the example above will give you the Ensembl gene identifiers of orthologs in zebrafish and xenopus. You also retrieve the orthology type and the percent identity of these orthologs compared to human. Cheers, Steffen > Hi Gundala, > I don't know how to use biomaRt but you can use Inparanoid directly or > the > hom.Hs.inp.db from within Bioconductor as one way to solve your problem. > > Robert > > > Gundala Viswanath wrote: >> Dear all, >> >> Is there a way I can download the human versus all >> vertebrates orthologs using biomaRt? >> >> >> >> - Gundala Viswanath >> Jakarta - Indonesia >> >> _______________________________________________ >> 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 > > _______________________________________________ > 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 >