Example of how to get all mouse gene coordinates using biomaRt: {{{ library(biomaRt) mouse <- useMart("ensembl", dataset="mmusculus_gene_ensembl") # check out what's available ma <- listAttributes(mouse) loci <- getBM(attribute=c("ensembl_gene_id", "chromosome_name", "start_position", "end_position", "strand"), mart=mouse) }}} {{{ library(biomaRt) # what marts are available? listMarts() bm <- useMart("ensembl") # what data sets are available? listDatasets(bm) bm <- useDataset("dmelanogaster_gene_ensembl", mart=bm) }}}