MicroRNA IDs to Chromosomal Location

Description

mirbaseCHRLOC is an R object that maps microRNA identifiers to the starting position of the microRNA. The position of a microRNA is measured as the number of base pairs.

The CHRLOCEND mapping is the same as the CHRLOC mapping except that it specifies the ending base of a microRNA instead of the start.

Details

Each microRNA identifier maps to a named vector of chromosomal locations, where the name indicates the chromosome.

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).

Since some microRNAs have multiple start sites, this field can map to multiple locations.

Source: miRBase (Version: 19) ftp://mirbase.org/pub/mirbase/CURRENT/ With a date stamp from the source of: 01 Aug 2012

Examples

    x <- mirbaseCHRLOC
    # Get the microRNA identifiers that are mapped to chromosome locations
    mapped_keys <- mappedkeys(x)
    # Convert to a list
    xx <- as.list(x[mapped_keys])
    if(length(xx) > 0) {
        # Get the CHRLOC for the first five entries
        xx[1:5]
    }