getGeneInfoByName: Get gene information for set of gene names.

In lptolik/synaptome.db: Synamptosome Proteome Database

Get gene information for set of gene names.

Description

Function lookup for name in Human Gene name, Rat Gene name and Mouse Gene name data and return following features for all found genes: GeneID (internal database ID), Localisation (one of the following: presynaptic, postsynaptic, synaptosome), MGI (MGI ID), HumanEntrez (Human Entrez ID), MouseEntrez (Mouse Entrez ID), HumanName (Human gene name), MouseName (Mouse gene name), PaperPMID (PMID IDs for the publications where the genes were reported), Paper (papers where specific genes were reported in a format FIRSTAUTHOR_YEAR), Year, SpeciesTaxID (specie the original experiment was performed on), BrainRegion (Brain region where the specific genes were identified, according to the paper)

Usage

getGeneInfoByName(name)

Arguments

name	vector of gene names

Details

This function then returns following features for all found genes:

• GeneID,

• Localisation,

• MGI,

• HumanEntrez,

• MouseEntrez,

• HumanName,

• MouseName,

• PaperPMID,

• Paper,

• Year,

• SpeciesTaxID,

• BrainRegion

Value

data.frame with fields specified above.

See Also

Other GeneInfo functions: getGeneInfoByEntrez(), getGeneInfoByIDs(), getGeneInfoByPapers()

Examples

# get information for specific gene
t <- getGeneInfoByName("CASK")

# get information for the list of genes
t <- getGeneInfoByName(c("CASK", "DLG2"))

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