Hi, is there an annotation packcage on the lines of org.Hs.db that supports the HPRD database? I saw a message from 2005 ( https://stat.ethz.ch/pipermail/bioconductor/2005-March/007972.html) but can't seem to find anything after that. Any pointers would be appreciated -- Rajarshi Guha [[alternative HTML version deleted]]

No we have not made use of HPRD, we do make a bit more use of other proteomic resources. If there are specific things only found there, perhaps you could explain what they are, and why we might want to include them. For protein interactions (if that is the part you want) there are a number of parsers around that would let you quickly make a database. I doubt that it would take too long to create a package which interfaces to the org.Hs type packages, but it is not high on our to-do list. We would gladly take a submission of this sort (but who ever does it has to be willing to update regularly, and may want to consider more data sources). A few notes: The RpsiXML package should help with the parsing. There are some packages that have yeast interaction data in them (hopefully soon to be at least one more) that you could look at. I suggest considering carefully the representation for the interactions, as it can be done quite inefficiently. best wishes Robert Rajarshi Guha wrote: > Hi, is there an annotation packcage on the lines of org.Hs.db that supports > the HPRD database? I saw a message from 2005 ( > https://stat.ethz.ch/pipermail/bioconductor/2005-March/007972.html) but > can't seem to find anything after that. > > Any pointers would be appreciated > -- Robert Gentleman, PhD Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M1-B514 PO Box 19024 Seattle, Washington 98109-1024 206-667-7700 rgentlem at fhcrc.org