getSymEnsUp: Gene to Protein ID Mappings

In girke-lab/drugTargetInteractions: Drug-Target Interactions

Gene to Protein ID Mappings

Description

The getSymEnsUp function returns for a query of gene or protein IDs a mapping table containing: ENSEMBL Gene IDs, Gene Names/Symbols, UniProt IDs and ENSEMBL Protein IDs. Subsequent slots contain the corresponding named character vectors. Internally, the function uses the ensembldb package.

Usage

getSymEnsUp(EnsDb = "EnsDb.Hsapiens.v86", ids, idtype)

Arguments

EnsDb	EnsDb instance of ensembldb package
ids	Character vector with IDs matching the type specified under idtype
idtype	Character vector of length one containing one of: GENE_NAME, ENSEMBL_GENE_ID or UNIPROT_ID

Value

List object with following components:

idDF	ID mapping data.frame
ens_gene_id	named character vector
up_ens_id	named character vector
up_gene_id	named character vector

Author(s)

Thomas Girke

Examples

	 gene_name <- c("CA7", "CFTR")
	 getSymEnsUp(EnsDb="EnsDb.Hsapiens.v86", ids=gene_name, idtype="GENE_NAME")

girke-lab/drugTargetInteractions documentation built on Oct. 10, 2022, 10:35 p.m.