hgu95dMAP {hgu95d.db} | R Documentation |
hgu95dMAP is an R object that provides mappings between manufacturer identifiers and cytoband locations.
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 object 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 ) on 2007-Aug23
x <- hgu95dMAP # Get the probe identifiers that are mapped to any cytoband mapped_probes <- mappedkeys(x) # Convert to a list xx <- as.list(x[mapped_probes]) if(length(xx) > 0) { # Get the MAP for the first five probes xx[1:5] # Get the first one xx[[1]] }