hu6800MAP {hu6800}R Documentation

Annotation of probe identifiers by cytobands

Description

hu6800MAP mappes probe ids to cytobands, which are the positions of cytogenetic bands within chromosomes

Details

This is an environment object with key and value pairs. Keys are probe ids and values are cytobands on chromosomes. Values are vectors of length 1 or greater depending on whether genes represented by probe ids can be mapped to only one or more chromosomes. NAs are assigned to probe ids that can not be mapped to any cytoband at this time.

The physical location of each band on a chromosome can be obtained from another environment named "organism"CYTOLOC in a separate data package for human(humanCHRLOC), mouse(mouseCHRLOC), and rat(ratCHRLOC).

Mappings were based on data provided by:

LocusLink built: March 3, 2004. ftp://ftp.ncbi.nih.gov/refseq/LocusLink/LL_tmpl.ga

Package built Wed Mar 3 16:27:29 2004

References

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

Examples

    # Convert the environment to a list
    xx <- as.list(hu6800MAP)
    # Remove probe ids that do not map to any cytoband
    xx <- xx[!is.na(xx)]
    if(length(xx) > 0){
        # The cytobands for the first two elements of XX
        xx[1:2]
        # Get the first one
        xx[[1]]
    }

[Package hu6800 version 1.5.1 Index]