is a Knowledge Graph.
ChEA-KG is a Ma'ayan Lab transcription factor knowledge graph and web resource associated with the ChEA3 platform, integrating transcription factor target gene libraries, coexpression networks, benchmarking datasets, and interactive query results for transcription factor enrichment analysis.
biomedical, genomics, systems biology
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| ID | Name | URL | Category | Format | Relation | Description |
|---|---|---|---|---|---|---|
| chea-kg.portal | ChEA-KG Explorer | chea-kg | GraphicalInterface | http | had primary source | Interactive ChEA3 web interface for t... |
| chea-kg.api | ChEA-KG API | enrich | ProgrammingInterface | http | had primary source | ChEA3 API endpoint for submitting gen... |
| chea-kg.graph | ChEA-KG Database | ❔ | GraphProduct | neo4j | had primary source | Neo4j knowledge graph integrating tra... |
| chea-kg.libraries | ChEA-KG Library Downloads | index.html#content4-13 | Product | http | had primary source | Download catalog for ChEA3 transcript... |
ChEA-KG is a Ma’ayan Lab transcription factor knowledge-graph project whose public web deployment currently presents the ChEA3 transcription factor enrichment interface. The resource combines transcription factor target libraries, coexpression-based networks, and benchmark perturbation datasets to support transcription factor enrichment analysis, ranked results, and interactive network visualization.
The public ChEA3 site explicitly documents the major upstream library families used by the resource. Primary libraries include ENCODE and ReMap ChIP-seq collections, literature-derived ChIP-seq libraries from prior ChEA releases, GTEx and ARCHS4 coexpression libraries, and Enrichr query co-occurrence data. Benchmarking datasets include single-transcription-factor perturbation signatures mined from GEO, while some network visualizations and annotations also draw on TCGA expression-derived modules.
The source repository documents a Neo4j-backed implementation and Docker-based local deployment workflow. The public site exposes a browser interface, a POST-based API endpoint for submitting gene sets to ChEA3, and a download section listing the library files used for enrichment analysis and benchmarking.
Created: September 23, 2025 | Last modified: May 21, 2026