biostudies-literatureSantos AEC | Horizon 2020 Framework ProgrammeNovo Nordisk Foundation Center for Protein ResearchNovo Nordisk FondenMax-Planck-Gesellschaft692-702https://www.ebi.ac.uk/biostudies/studies/S-EPMC9110295biostudies-literatureUnknown40(5)Implementing precision medicine hinges on the integration of omics data, such as proteomics, into the clinical decision-making process, but the quantity and diversity of biomedical data, and the spread of clinically relevant knowledge across multiple biomedical databases and publications, pose a challenge to data integration. Here we present the Clinical Knowledge Graph (CKG), an open-source platform currently comprising close to 20 million nodes and 220 million relationships that represent relevant experimental data, public databases and literature. The graph structure provides a flexible data model that is easily extendable to new nodes and relationships as new databases become available. The CKG incorporates statistical and machine learning algorithms that accelerate the analysis and inNature biotechnologyA knowledge graph to interpret clinical proteomics data.PMC9110295NNF14CC0001PI Lars Juhl JensenPI Simon RasmussenPI Matthias Mann846795NNF15CC0001Santos AAlbrechtsen NJWMundt FStrauss MNiu LGeyer PEColaco ARCoscia FJensen LJMann MNielsen ABfalseA knowledge graph to interpret clinical proteomics data.Implementing precision medicine hinges on the integration of omics data, such as proteomics, into the clinical decision-making process, but the quantity and diversity of biomedical data, and the spread of clinically relevant knowledge across multiple biomedical databases and publications, pose a challenge to data integration. Here we present the Clinical Knowledge Graph (CKG), an open-source platform currently comprising close to 20 million nodes and 220 million relationships that represent relevant experimental data, public databases and literature. The graph structure provides a flexible data model that is easily extendable to new nodes and relationships as new databases become available. The CKG incorporates statistical and machine learning algorithms that accelerate the analysis and in2022-01-01T00:00:00Z2022 May2026-05-09T23:37:21.622Z2025-02-19T02:58:50.28ZS-EPMC91102953510229210.1038/s41587-021-01145-6