Clinical Knowledge Graph
Clinical Knowledge Graph (CKG) is an open-source biomedical knowledge graph platform that integrates proteomics data, clinical data, biomedical databases, and literature to support clinically meaningful querying, analysis, and hypothesis generation. The standalone project is no longer actively maintained and has been incorporated into the BioCypher framework.
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{"activity_status": "inactive", "category": "KnowledgeGraph", "creation_date": "2026-04-06T00:00:00Z", "description": "Clinical Knowledge Graph (CKG) is an open-source biomedical knowledge graph platform that integrates proteomics data, clinical data, biomedical databases, and literature to support clinically meaningful querying, analysis, and hypothesis generation. The standalone project is no longer actively maintained and has been incorporated into the BioCypher framework.", "domains": ["clinical", "biomedical", "precision medicine", "proteomics", "health"], "homepage_url": "https://ckg.readthedocs.io/", "id": "ckg", "last_modified_date": "2026-04-06T00:00:00Z", "layout": "resource_detail", "license": {"id": "https://opensource.org/licenses/MIT", "label": "MIT License"}, "name": "Clinical Knowledge Graph", "products": [{"category": "GraphProduct", "description": "Graph database dump and additional relationship files for the Clinical Knowledge Graph.", "format": "neo4j", "id": "ckg.graph", "name": "CKG Graph Database Dump", "original_source": ["uniprot", "tissues", "string", "stitch", "smpdb", "signor", "sider", "refseq", "reactome", "phosphositeplus", "pfam", "oncokb", "mutationds", "intact", "hpa", "hmdb", "hgnc", "gwascatalog", "foodb", "drugbank", "disgenet", "diseases", "dgidb", "corum", "cancer-genome-interpreter", "doid", "bto", "efo", "go", "hp", "snomedct", "mod", "mi", "ms", "uo"], "product_url": "https://data.mendeley.com/datasets/mrcf7f4tc2/1"}, {"category": "DocumentationProduct", "description": "Project documentation for installing, building, and querying the Clinical Knowledge Graph.", "format": "http", "id": "ckg.docs", "name": "CKG Documentation", "original_source": ["ckg"], "product_url": "https://ckg.readthedocs.io/"}], "publications": [{"doi": "doi:10.1038/s41587-021-01145-6", "id": "https://doi.org/10.1038/s41587-021-01145-6", "journal": "Nature Biotechnology", "preferred": true, "title": "A knowledge graph to interpret clinical proteomics data", "year": "2022"}], "repository": "https://github.com/MannLabs/CKG", "taxon": ["NCBITaxon:9606"]}