Clinical Knowledge Graph

Published: 11 May 2020| Version 1 | DOI: 10.17632/mrcf7f4tc2.1
Alberto Santos,


We have developed the Clinical Knowledge Graph (CKG), an open source platform currently comprised of more than 16 million nodes and 220 million relationships to represent relevant experimental data, public databases and the literature. The CKG incorporates the latest statistical and machine learning algorithms, drastically accelerating analysis and interpretation of typical proteomics workflows. We use several biomarker studies to illustrate how the CKG may support, enrich and accelerate clinical decision-making. Here, we are uploading a dump of CKG's database that can be used to easily create a Neo4 graph database harmonizing 9 ontologies, 26 relevant biomedical databases. Experimental studies included in the publication are also included as CKG reports. To get the full database up and running follow the installation instructions specified in CKG's documentation ( and GitHub repository (  



Proteomics, Graph-Based Representation, Omics, Database