Hi, I'm wondering if there is a tool in Bioconductor (or anywhere else) that can map a list of differentially expressed genes to their physical position on the chromosomes and tell whether there is any positional clustering of the genes? I.e. the differentially expressed genes are located in similar regions of the same chromosomes? -Thanks, Paul. -- Paul Geeleher School of Mathematics, Statistics and Applied Mathematics National University of Ireland Galway Ireland

Hi Paul, The org.*.eg.db annotation packages provide mappings from gene IDs to their location in the genome: http://bioconductor.org/packages/2.4/AnnotationData.html If you are new to Bioconductor annotations, a must-read is the vignette in the AnnotationDbi package + the man page of the particular map you want to use (probably org.*.egCHRLOC and org.*.egCHRLOCEND in your case). Cheers, H. Paul Geeleher wrote: > Hi, > > I'm wondering if there is a tool in Bioconductor (or anywhere else) > that can map a list of differentially expressed genes to their > physical position on the chromosomes and tell whether there is any > positional clustering of the genes? I.e. the differentially expressed > genes are located in similar regions of the same chromosomes? > > -Thanks, > > Paul. > -- Hervé Pagès Program in Computational Biology Division of Public Health Sciences Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N, M2-B876 P.O. Box 19024 Seattle, WA 98109-1024 E-mail: hpages at fhcrc.org Phone: (206) 667-5791 Fax: (206) 667-1319