Map between Entrez Gene Identifiers and Gene Symbols

Description

org.Hs.egSYMBOL is an R object that provides mappings between entrez gene identifiers and gene abbreviations.

Details

Each entrez gene identifier is mapped to the a common abbreviation for the corresponding gene. An NA is reported if there is no known abbreviation for a given gene.

Symbols typically consist of 3 letters that define either a single gene (ABC) or multiple genes (ABC1, ABC2, ABC3). Gene symbols can be used as key words to query public databases such as Entrez Gene.

Mappings were based on data provided by: Entrez Gene ftp://ftp.ncbi.nlm.nih.gov/gene/DATA With a date stamp from the source of: 2017-Nov6

References

https://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene

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.egSYMBOL
# Get the gene symbol that are mapped to an entrez gene identifiers
mapped_genes <- mappedkeys(x)
# Convert to a list
xx <- as.list(x[mapped_genes])
if(length(xx) > 0) {
  # Get the SYMBOL for the first five genes
  xx[1:5]
  # Get the first one
  xx[[1]]
}
# For the reverse map:
x <- org.Hs.egSYMBOL2EG
# Get the entrez gene identifiers that are mapped to a gene symbol
mapped_genes <- mappedkeys(x)
# Convert to a list
xx <- as.list(x[mapped_genes])
if(length(xx) > 0) {
  # Get the entrez gene ID for the first five genes
  xx[1:5]
  # Get the first one
  xx[[1]]
}