| org.Hs.egCHRLOC {org.Hs.eg.db} | R Documentation |
org.Hs.egCHRLOC is an R object that maps entrez gene identifiers to the starting position of the gene. The position of a gene 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 gene instead of the start.
Each entrez gene 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 genes have multiple start sites, this field can map to multiple locations.
Mappings were based on data provided by: UCSC Genome Bioinformatics (Homo sapiens)
With a date stamp from the source of: 2017-Oct9
AnnotationDb-class for use of
the select() interface.
## select() interface:
## Objects in this package can be accessed using the select() interface
## from the AnnotationDbi package. See ?select for details.
## Bimap interface:
x <- org.Hs.egCHRLOC
# Get the entrez gene identifiers that are mapped to chromosome locations
mapped_genes <- mappedkeys(x)
# Convert to a list
xx <- as.list(x[mapped_genes])
if(length(xx) > 0) {
# Get the CHRLOC for the first five genes
xx[1:5]
# Get the first one
xx[[1]]
}