getPathwaysFromGenesAndCondition


        URI of a condition based on the EFO ontology class. 
    

condition


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

endpoint


    Get list of pathway names that are connected to genes (via proteins which are encoded for by those genes) and which are reported as
    differentially expressed under a specified condition. The condition is specified as an ontology URI. 


Query the Gene Expression Atlas RDF data at the European Bioinformatics Institute using genes, experimental factors (such as disease, cell type, compound treatments), pathways and proteins. Also contains a function to perform an enrichment of your gene list across Experimental Factor Ontology (EFO) using the Atlas background set.

James Malone

AtlasRDF

Gene Expression Atlas query and gene set enrichment package.

getPathwaysFromGenesAndCondition function

URI of a condition based on the EFO ontology class.

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

Get list of pathway names that are connected to genes (via proteins which are encoded for by those genes) and which are reported as
    differentially expressed under a specified condition. The condition is specified as an ontology URI.

Get pathways connected to genes which are differentially expressed for a user specified condition.

pathwayname

pathway

expressionvalue

p-value of the differential expression of the gene for this pathway in this condition

getPathwaysFromGenesAndCondition: Get pathways connected to genes which are differentially expressed for a user specified condition.

Description

Usage

Arguments

Value

Examples