Get ENSEMBL genes which have been differentially expressed for a given condition and species.

Description

Get the ENSEMBL gene IDs and names which are reported as differentially expressed in Atlas for a specified conditions and species.

Usage

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getSpeciesSpecificEnsemblGenesForExFactor(exfactor, taxon, limit = 0, endpoint="http://www.ebi.ac.uk/rdf/services/atlas/sparql")

Arguments

exfactor

URI of the experimental factor search term

taxon

URI of the species to limit search to

limit

Optional limit to number of genes returned (default is all)

endpoint

The location of the SPARQL endpoint - default value is live Atlas endpoint

Value

data frame of results with the following:

dbXref

URI identifier of the gene

genename

Common gene name

ensemblid

ENSEMBL ID of gene

Author(s)

James Malone, Simon Jupp

Examples

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###get genes differentially expressed for HeLa cells (efo:EFO_0001185) in human (obo:NCBITaxon_9606)
#getSpeciesSpecificEnsemblGenesForExFactor("efo:EFO_0001185", "obo:NCBITaxon_9606")

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