Map Ensembl protein acession numbers with Entrez Gene identifiers

Description

org.Hs.egENSEMBL is an R object that contains mappings between Entrez Gene identifiers and Ensembl protein accession numbers.

Details

This object is a simple mapping of Entrez Gene identifiers https://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene to Ensembl protein accession numbers.

Mappings were based on data provided by: ftp://ftp.ensembl.org/pub/current_fasta ftp://ftp.ncbi.nlm.nih.gov/gene/DATA

See Also

• AnnotationDb-class for use of the select() interface.

Examples

## 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.egENSEMBLPROT
# Get the entrez gene IDs that are mapped to an Ensembl ID
mapped_genes <- mappedkeys(x)
# Convert to a list
xx <- as.list(x[mapped_genes])
if(length(xx) > 0) {
  # Get the Ensembl gene IDs for the first five proteins
  xx[1:5]
  # Get the first one
  xx[[1]]
}
#For the reverse map ENSEMBLPROT2EG:
# Convert to a list
xx <- as.list(org.Hs.egENSEMBLPROT2EG)
if(length(xx) > 0){
   # Gets the entrez gene IDs for the first five Ensembl IDs
   xx[1:5]
   # Get the first one
   xx[[1]]
}