hu6800CHRLOC {hu6800}R Documentation

Annotation of probe ids by chromosomal location

Description

hu6800CHRLOC mappes probe ids to chromosomal locations (measured as number of base pairs from the p arm) for genes corresponding to the probe ids.

Details

This is an environment object with key and value pairs. Keys are probe ids and values are their corresponding chromosomal locations. NAs assigned to probe ids whose chromosomal locations are not known. Values are named vectors of length 1 or more depending on whether a given probe id can be mapped to a single or multiple locations on one or more than onw chromosomes. The names of the vectors give the chromosome number of concern. Names for chromosomal locations on the antisense strand have a leading "-" sign (e. g. -1234567). Chromosomal locations on both the sense and antisense strand are measured as the number of base pairs from the p (5' end of the sense strand) to q (3' end of the sense strand) arms. When a gene can not be placed on a chromosome with confidence, "random" is appended to the end of the name for a chromosomal location value.

Mappings were based on data provided by:

Human Genome Project built: hg16.http://www.genome.ucsc.edu/goldenPath/hg16

Package built Wed Mar 3 16:27:29 2004

References

http://www.genome.ucsc.edu/goldenPath/hg16/database/

Examples

    # Covert to a list
    xx <- as.list(hu6800CHRLOC)
    # Remove probe ids that do not map to any CHRLOC
    xx <- xx[!is.na(xx)]
    if(length(xx) > 0){
    # Gets the location for the first five probes
            xx[1:5]
            # Gets the first one
            xx[[1]]
    }

[Package hu6800 version 1.5.1 Index]