IndraLab

INDRA Biomedical Discovery Engine

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.

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Biological Entities

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Clinical Trials

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Publications

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Evidences

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Research Projects

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Patents

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MeSH Annotations
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Project Publications
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Citations
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Causal Relations
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Gene Expressions
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CNVs
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Mutations
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Phenotype Genes
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Project Patents
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Project Trials
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Part Of
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Disease Trials
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Subclasses
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Has Part
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Drug Trials
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GO Annotations
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Side Effects
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Disease Phenotypes
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Sensitivities
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Drug Indications

Apps and Services using INDRA CoGEx

Over-representation analysis
Discrete Gene List Analysis

Performs gene set enrichment analysis using INDRA CoGEx.

Reverse Causal Reasoning
Signed Gene List Analysis

Perform signed gene set enrichment analysis using INDRA CoGEx and the Reverse Causal Reasoning algorithm.

GSEA
Continuous Gene Set Enrichment Analysis

Perform gene set enrichment analysis on continuous data using INDRA CoGEx.

Metabolite set enrichment analysis
Discrete Metabolite List Analysis

Perform metabolite set enrichment analysis using INDRA CoGEx.

Directed Curation

GO Pathway Curator

Curate networks induced by genes associated with a given Gene Ontology term.

Topic Curator

Curate statements from publications annotated with the given MeSH term.

Publication Curator

Curate statements from a given publication.

Subnetwork Curator

Curate statements for the subnetwork induced by given entities.

Proteocentric Curation

TF Curator

Curate statements about transcription factors regulating the amounts of their targets not already appearing in databases like Pathway Commons.

Kinase Curator

Curate statements about kinases phosphorylating targets not already appearing in databases like PhosphoSitePlus.

Phosphatase Curator

Curate statements about phosphatases dephosphorylating targets not already appearing in databases like Pathway Commons.

Deubiquitinase Curator

Curate statements about deubiquitinating enzymes.

GO Annotation Curator

Curate gene-GO term associations that are not already available as GO annotations.

PPI Curator

Curate protein-protein interactions not already appearing in databases like BioGRID.

miRNA Curator

Curate miRNA-target interactions not already appearing in databases like miRTarBase.

Disorder Curator

Curate intrensically disordered proteins' interactions not already appearing in databases.

Chat with INDRA CoGEx
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