findGenesByName: Find GeneIDs for names

In lptolik/synaptome.db: Synamptosome Proteome Database

Find GeneIDs for names

Description

Get internal gene representation for set of gene names. Function lookups for provided values in Human Name, Mouse Name and Rat Name columns and return following features for all found genes: GeneID (internal database ID), MGI ID, Human Entrez ID, Mouse Entrez ID, Rat Entrez ID, Human gene name, Mouse gene name and Rat gene name.

Usage

findGenesByName(name)

Arguments

name	vector of gene names.

Details

Could be used as an intermediate step for building Protein-Protein interaction map from the list of Gene IDs returned in the first column. Also, this function provides a useful sanity check, e.g. how many Gene IDs correspond to the specific gene name or Entrez ID, which could be specie-specific.

Value

data.frame with columns specified above.

See Also

Other Lookup functions: findGenesByEntrez()

Other Gene functions: findGeneByCompartmentPaperCnt(), findGeneByPaperCnt(), findGeneByPapers(), findGenesByEntrez(), getAllGenes4Compartment(), getGenes4Compartment(), getGenesByID()

Examples

# Find GeneIDs for names
t <- findGenesByName(c("Src", "Srcin1", "Fyn"))

lptolik/synaptome.db documentation built on Sept. 13, 2023, 2:50 p.m.