We apply ontologies and knowledge graphs to model drug-target interactions, drug indications, and adverse drug reactions. This work links molecular data to systems biology through causal knowledge graphs, enabling the identification of mechanistic relationships and potential drug repurposing targets.
- Section
- Applications
- Keywords
- drug-target interaction, DTI-Voodoo, drug repurposing, PharmGKB, SBML Harvester, causal knowledge graph, adverse drug reaction, systems biology
Connections
related papers borg:linkedPaper
- DeepViral: prediction of novel virus–host interactions from protein sequences and infectious disease phenotypes
- DDIEM: drug database for inborn errors of metabolism
- Combining biomedical knowledge graphs and text to improve predictions for drug-target interactions and drug-indications
- LEP-AD: language embedding of proteins and attention to drugs predicts drug-target interactions
- Molecular basis and cellular effects of Janus-class–driven cytoplasmic PYK2 coacervates
- Ranking Adverse Drug Reactions With Crowdsourcing
- DTI-Voodoo: machine learning over interaction networks and ontology-based background knowledge predicts drug\textendashtarget interactions
- Similarity-based search of model organism, disease and drug effect phenotypes
- Nanodesigner: resolving the complex-CDR interdependency with iterative refinement
- Causal knowledge graph analysis identifies adverse drug effects
- Linking PharmGKB to phenotype studies and animal models of disease for drug repurposing
- Identifying aberrant pathways through integrated analysis of knowledge in pharmacogenomics
- Semantic Systems Biology: Formal Knowledge Representation in Systems Biology for Model Construction, Retrieval, Validation and Discovery
- Mouse model phenotypes provide information about human drug targets
- SIDEKICK: A Semantically Integrated Resource for Drug Effects, Indications, and Contraindications
- Integration of knowledge for personalized medicine: a pharmacogenomics case-study
- Su1295: Chemically defined peptide-based matrices enabling the development of colorectal organoid models for therapeutic applications and disease modeling
related projects borg:linkedProject
related people borg:linkedPerson
Referenced by
research topics borg:topic
- KAUST Center of Excellence for Generative AI (Health and Wellness, BCB theme)
- Data integration and ontologies for microbial cell factories
- Robert Hoehndorf
- Mona Alshahrani
- Maxat Kulmanov
- Sumyyah Toonsi
- Mahdi Bu Ali
- Miguel Angel Rodriguez Garcia
- Vladimir Bajic
- DDIEM: drug database for inborn errors of metabolism
- DeepViral: prediction of novel virus–host interactions from protein sequences and infectious disease phenotypes
- Combining biomedical knowledge graphs and text to improve predictions for drug-target interactions and drug-indications
- LEP-AD: language embedding of proteins and attention to drugs predicts drug-target interactions
- Molecular basis and cellular effects of Janus-class–driven cytoplasmic PYK2 coacervates
- Ranking Adverse Drug Reactions With Crowdsourcing
- DTI-Voodoo: machine learning over interaction networks and ontology-based background knowledge predicts drug\textendashtarget interactions
- Similarity-based search of model organism, disease and drug effect phenotypes
- Nanodesigner: resolving the complex-CDR interdependency with iterative refinement
- Causal knowledge graph analysis identifies adverse drug effects
- Linking PharmGKB to phenotype studies and animal models of disease for drug repurposing
- Identifying aberrant pathways through integrated analysis of knowledge in pharmacogenomics
- Semantic Systems Biology: Formal Knowledge Representation in Systems Biology for Model Construction, Retrieval, Validation and Discovery
- Mouse model phenotypes provide information about human drug targets
- SIDEKICK: A Semantically Integrated Resource for Drug Effects, Indications, and Contraindications
- Integration of knowledge for personalized medicine: a pharmacogenomics case-study
- Su1295: Chemically defined peptide-based matrices enabling the development of colorectal organoid models for therapeutic applications and disease modeling
Open in the interactive graph →
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