ratCHRLOC17START {ratCHRLOC}R Documentation

An annotation data file for transciption starting locations of genes on chromosome 17

Description

ratCHRLOC17START maps Entrez Gene identifiers to the transciption starting locations of genes on chromosome number 17 corresponding to the Entrez Gene identifiers

Details

This is an environment object containing key and value pairs. Keys are Entrez Gene identifiers and values are the transciption starting location for genes. The starting positions for genes on both the sense and antisense strand are number of base pairs measured from the p (5' end of the sense strand) to q (3' end of the sense strand) arms. Values for the antisense strand have a leading "-" sign (e. g. -1234567).

Values for keys are named vectors of length 1 derived from the smallest starting value found for the Entrez Gene identifier. Names of chromosome location values can be "Confident" when the gene can be confidently placed on a chromosome and "Unconfident" otherwise (denoted by "_random" in UCSC data).

Mappings were derived from the following public data sources:

Golden Path:http://gopher5/compbio/annotationSourceData/hgdownload.cse.ucsc.edu/goldenPath/currentGenomes//Rattus_norvegicus/database/. Built: No build info available.

Package built: Wed Sep 6 12:15:29 2006

References

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

Examples

        require("annotate") || stop("annotate unavailable")
        xx <- as.list(ratCHRLOC17START)
        if(length(xx) > 0){
                # Get the value of the first key
                xx[1]
                # Get the values for a few keys
                if(length(xx) >= 3){
                    xx[1:3]
                }
        }

[Package ratCHRLOC version 1.14.1 Index]