[BioC] Detecting overrepresented genomic loci

[jeffrey rasmussen]

Hi all,

My goal is to discover regions with multiple adjacent genes coordinately 
regulated. Are there any packages that would allow one to test for genomic 
loci that are overrepresented in a subset of genes versus the remaining 
genes on the chip? I have tried using the geneplotter package to visualize 
the genomic distribution of differentially expressed genes, however, I 
have found it difficult to identify candidate loci from these plots 
because neighboring genes are indistinguishable from each other on the 
output graphic.

Thanks,
Jeff.

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Jeffrey Rasmussen
Research Consultant, Bioinformatics
Department of Immunology
University of Washington