Map between Entrez Gene Identifiers and cytogenetic maps/bands

Description

org.Rn.egMAP is an R object that provides mappings between entrez gene identifiers and cytoband locations.

Details

Each entrez gene identifier is mapped to a vector of cytoband locations. The vector length may be one or longer, if there are multiple reported chromosomal locations for a given gene. An NA is reported for any entrez gene identifiers that cannot be mapped to a cytoband at this time.

Mappings were based on data provided by: Entrez Gene ftp://ftp.ncbi.nlm.nih.gov/gene/DATA With a date stamp from the source of: 2011-Sep14

References

http://www.ncbi.nlm.nih.gov

Examples

        x <- org.Rn.egMAP
        # Get the entrez gene identifiers that are mapped to any cytoband
        mapped_genes <- mappedkeys(x)
        # Convert to a list
        xx <- as.list(x[mapped_genes])
        if(length(xx) > 0) {
          # Get the ids for the first five genes
          xx[1:5]
          # Get the first one
          xx[[1]]
        }
        #For the reverse map org.Rn.egMAP2EG
        x <- org.Rn.egMAP2EG
        # Get the cytobands that are mapped to any entrez gene id
        mapped_bands <- mappedkeys(x)
        # Convert to a list
        xx <- as.list(x[mapped_bands])
        if(length(xx) > 0) {
          # Get the bands for the first five genes
          xx[1:5]
          # Get the first one
          xx[[1]]
        }