mpedbarrayMAP {mpedbarray} | R Documentation

## Map between Manufacturer Identifiers and cytogenetic maps/bands

### Description

mpedbarrayMAP is an R environment that provides mappings between manufacturer identifiers and cytoband locations.

### Details

Each manufacturer 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 manufacturer identifiers that cannot be mapped to a cytoband at this time.

Cytogenetic bands for most higher organisms are labeled p1, p2, p3, q1, q2, q3 (p and q are the p and q arms), etc., counting from the centromere out toward the telomeres. At higher resolutions, sub-bands can be seen within the bands. The sub-bands are also numbered from the centromere out toward the telomere. Thus, a label of 7q31.2 indicates that the band is on chromosome 7, q arm, band 3, sub-band 1, and sub-sub-band 2.

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:

Entrez Gene:ftp://ftp.ncbi.nlm.nih.gov/gene/DATA/. Built: Source data downloaded from Entrez Gene on Fri Aug 24 19:51:56 2007

Package built Fri Aug 24 20:11:08 2007

### References

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

### Examples

        # Convert the environment to a list
        xx <- as.list(mpedbarrayMAP)
        # Remove probe identifiers 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 mpedbarray version 2.0.1 Index]