On Tue, Apr 3, 2012 at 7:21 AM, email mail <email8...@gmail.com> wrote: > Hi: > > I have clustered microarray gene expression data and trying to map between > microarray probe, gene, pathway, gene ontology, and homology for a set of > (affy) microarray probes. Is there any package in R which facilitates this? > I am looking at bioconductor, but till now could not find a solution. A > link to some worked example would be appreciated.
Yes, Bioconductor has annotation packages for microarray chips plus other packages for connecting gene identifiers to (for example) gene ontologies. For example, the package hgu133plus2.db contains annotations for the U133 plus 2 chip and you can use to map affy probe IDs to gene symbols, IDs, GO terms etc. Install the package, load it, then type ls("package:hgu133plus2.db") and look at the help files for each topic for more details and examples. The array annotations are chip-specific so you need to choose the right package for your chip. Peter ______________________________________________ R-help@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.