We collect evidence (E) from various data sources (e.g. Reactome, SLAPenrich, PROGENy, CRISPR, and SysBio) to allow for target identification and prioritisation when using the Open Targets Platform.
To associate targets (T) with diseases (D), we group similar data sources into broader categories called data types:
Drugs
Data type category | Data source | Reference(s) |
Genetic associations | ||
Genetic associations | ||
Genetic associations | ||
Genetic associations | ||
Genetic associations | ||
Genetic associations | UniProt | |
Known drugs | ChEMBL | |
Pathways & Sys Bio | Reactome | |
Pathways & Sys Bio | CRISPR (via Project Score) | |
Pathways & Sys Bio | ||
Pathways & Sys Bio | SysBio | Peters, L. A. et al, 2017; Huan, T. et al, 2013; Zhang, B. et al, 2013; Mostafavi, S. et al, 2018 |
Pathways & Sys Bio | PROGENy | |
RNA expression | ||
Somatic mutations | ||
Somatic mutations | intOGen | |
Somatic mutations | ||
Literature | ||
Animal Models |
Evidence from an individual data source can contribute to different data types. For example, data from ClinVar from EVA is used as evidence for both Genetic associations and Somatic mutations, depending on whether the evidence is germline or somatic mutation.
Entity | Annotation data | Data source |
Target | Protein, positional, and structural information; functional annotation; Gene Ontology | UniProt |
Target | Protein Interactions | OmniPath |
Target | Pathways | Reactome |
Target | Baseline expression | |
Target | Variants, isoforms, and genomic context | Ensembl |
Target | Comparative genomics | |
Target | Mouse phenotypes | MGI |
Target | Cancer hallmarks | |
Target | Cancer biomarkers | |
Target | Chemical Probes | SGC; Chemical Probes Portal; Open Science Probe Project; Probe Miner |
Target | Bibliography | |
Target | Target tractability | |
Target | Target safety | |
Target | Target Enabling Packages | SGC |
Target | Drugs | ChEMBL |
Target | CRISPR-Cas9 cancer cell line dependency | |
Target | Protein structure | PDBe |
Disease | Description; cross-references; synonyms; ontology and classification | EFO |
Disease | Phenotypes | EFO |
Disease | Bibliography | |
Disease | Drugs | ChEMBL |
Drug | Molecule information, including structure (if available), modality, withdrawal notice, and mechanism of action | ChEMBL |
Drug | Clinical trial information | ChEMBL |
Drug | Bibliography |