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That should in principle be described by looking at the help page for rat2302. At least they give the sources of the annotation, and then you have to look at AnnBuilder to get an idea of how that is integrated. Perhaps the stuff from the help page is enough if you have similar info from Affy? Kasper On Oct 24, 2006, at 2:57 PM, Karen Vranizan wrote: > I am finding that some of the annotation in the rat2302 > Bioconductor annotation metadata is quite different from the > Rat230_2_annot data from Affy. Can someone describe for me where > the Bioconductor annotation comes from? Thank you. > > Karen Vranizan > Functional Genomics Lab > 261A Life Sciences Addition > Mail Code #3200 > UC Berkeley, CA 94720-3200 > > Phone: 510-642-7520 > Fax: 510-643-2685 > email: vranizan at berkeley.edu > > [[alternative HTML version deleted]] > > _______________________________________________ > 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

Dear Karen, rat2302 is generated by first mapping probeset IDs to Entrez Gene IDs and then retrieving annotations of those Entrez Gene IDs from public databases. The vigentte of AnnBuilder ("How to use AnnBuilder") lists the URLs of those public databases. Also, this post explains a bit about the probeset to Entrez Gene mapping process: http://article.gmane.org/gmane.science.biology.informatics.conductor/9 016 Similar questions have been asked and answered many times. Maybe you could dig more in the mailinglist... HTH nianhua