hello list, I am approaching a meta-analysis task where I have to compare Affy data from human, mouse and rat chipsets. I have seen some interesting things in Gregoryev et al. GenomeBiology 2004. There, the authors have used external tools (RESOURCERER and EGO) to define the ortholog gene sets between several pairs of Affy GeneChips. I was wondering if since then, any internal BioConductor tool has been developed (or it is in the plans of BioC developers for the future). do you have any operative suggestion different than the one used by Gregoryev et al? Thank you very much in advance for your kind help. Sincerely Dario -- Dario Greco Institute of Biotechnology - University of Helsinki Building Cultivator II P.O.Box 56 Viikinkaari 4 FIN-00014 Finland Office: +358 9 191 58951 Fax: +358 9 191 58952 Mobile: +358 44 023 5780 Lab WebPage: http://www.biocenter.helsinki.fi/bi/dna-microarray/ Personal WebPage: http://www.biocenter.helsinki.fi/bi/dna- microarray/dario.htm

On 4/3/06 5:28 AM, "Dario Greco" <dario.greco at="" helsinki.fi=""> wrote: > hello list, > > I am approaching a meta-analysis task where I have to compare Affy data > from human, mouse and rat chipsets. > > I have seen some interesting things in Gregoryev et al. GenomeBiology > 2004. There, the authors have used external tools (RESOURCERER and EGO) to > define the ortholog gene sets between several pairs of Affy GeneChips. > > I was wondering if since then, any internal BioConductor tool has been > developed (or it is in the plans of BioC developers for the future). Look at the biomaRt package and particularly at the getXref function. Also, you could look at using the HOMOLOGY metadata package. Sean