AtlasRDF (version 1.8.0)

getGenesForExperimentID: Get all of the genes reported in an experiment, speicifed by the Atlas experiment ID.

Description

Get all of the gene as reported within an experiment. The experiment is specified as an Atlas experiment ID e.g. E-GEOD-3865

Usage

getGenesForExperimentID(experiment, endpoint = "http://www.ebi.ac.uk/rdf/services/atlas/sparql")

Arguments

experiment

Atlas experiment ID.

endpoint

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

Value

data frame containg following elements

expressionValue

The summarised expression value for this gene

dbXref

The URI identifier for this gene

pvalue

The p-value representing differentially expression for this gene

propertyValue

The property value for which this gene was reported as differentially expressed

Examples

###get genes for experiment ID E-MEXP-3739
#Can take several minutes to complete
#res <- getGenesForExperimentID("E-MEXP-3739")
###list first gene in the experiment
#res[1,]