getGene {biomaRt}R Documentation

Retrieves gene annotation information

Description

This function function retrieves gene annotations (chromsome name, band, start position, end position, gene description and gene symbol) from Ensembl given many types of identifiers

Usage

getGene( id, type, mart)

Arguments

id gene identifier
type type of identifier, possible values can be obtained by the listFilters function. Examples are entrezgene, hgnc_symbol (for hugo gene symbol), ensembl_gene_id, unigene, agilentprobe, affy_hg_u133_plus_2, refseq_dna, etc.
mart object of class Mart, containing connections to the BioMart databases. You can create such an object using the function useMart.

Author(s)

Steffen Durinck

Examples


if(interactive()){

mart = useMart("ensembl", dataset="hsapiens_gene_ensembl")

#example using affy id

g = getGene( id = "1939_at", type = "affy_hg_u95av2", mart = mart)
show(g)

#example using Entrez Gene id

g = getGene( id = "100", type = "entrezgene", mart = mart)
show(g)

}

[Package biomaRt version 1.10.1 Index]