hgu95av2CHRLOC {hgu95av2}R Documentation

Map Manufacturer IDs to Chromosomal Location

Description

hgu95av2CHRLOC is an R environment that maps manufacturer ids to the starting position of the gene. The position of a gene is measured as the number of base pairs.

Details

Each manufacturer id maps to a named vector of chromosomal locations, where the name indicates the chromosome. Due to inconsistencies that may exist at the time the environment was built, these vectors may contain more than one chromosome and/or location. If the chromosomal location is unknown, the vector will contain an NA.

Chromosomal locations on both the sense and antisense strands 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. Chromosomal locations on the antisense strand have a leading "-" sign (e. g. -1234567).

Mappings were based on data provided by:

Golden Path:http://gopher5/compbio/annotationSourceData/hgdownload.cse.ucsc.edu/goldenPath/currentGenomes//Homo_sapiens/database/. Built: currentGenomes//Homo_sapiens

Package built Tue Oct 4 21:31:35 2005

Examples

    # Covert to a list
    xx <- as.list(hgu95av2CHRLOC)
    # 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 hgu95av2 version 1.10.0 Index]