The INDRA Biomedical Discovery Engine is built on INDRA CoGEx, a graph database integrating causal relations, ontological relations, properties, and data, assembled at scale automatically from the scientific literature and structured sources.
Biological Entities
Clinical Trials
Publications
Evidences
Research Projects
Patents
Performs gene set enrichment analysis using INDRA CoGEx.
Perform signed gene set enrichment analysis using INDRA CoGEx and the Reverse Causal Reasoning algorithm.
Perform gene set enrichment analysis on continuous data using INDRA CoGEx.
Perform metabolite set enrichment analysis using INDRA CoGEx.
Identify kinases that are statistically enriched in a set of phosphosites based on known kinase-substrate relationships.
Analyze relationships between a source gene and its downstream target genes.
Search statements assembled from literature and databases by agents involved.
Explore networks induced by genes associated with a given Gene Ontology term.
Explore statements from publications annotated with the given MeSH term.
Explore statements from a given publication.
Explore statements for the subnetwork induced by given entities.
Browse and search structured clinical trial results by publication or gene.
Explore statements about transcription factors regulating target abundance, with optional inclusion of database evidence from sources like Pathway Commons.
Explore statements about kinases phosphorylating targets, with optional inclusion of database evidence from sources like PhosphoSitePlus.
Explore statements about phosphatases dephosphorylating targets, with optional inclusion of database evidence from sources like Pathway Commons.
Explore statements about deubiquitinating enzymes.
Explore candidate gene-GO term associations, with optional inclusion of evidence from database sources.
Explore protein-protein interactions, with optional inclusion of database evidence from sources like BioGRID.
Explore miRNA-target interactions, with optional inclusion of database evidence from sources like miRTarBase.
Explore intrinsically disordered protein interactions, with optional inclusion of database evidence from database sources.