Semantic similarity

Bio2Vec: Smart analytics infrastructure for the life sciences

Smart analytics infrastructure on biological knowledge graphs; extends Bio2RDF, develops semantic analytics methods that became OPA2Vec / OWL2Vec. Period: 2018–2020 Funding KAUST Competitive Research Grant — Grant ID: URF/1/3454-01-01 (PI) — USD 113,250 Team Robert Hoehndorf — PI (KAUST (Professor of Computer Science)) Xin Gao — CoI (KAUST (CBRC)) Michel Dumontier — CoI (Maastricht University) Jens Lehmann — CoI (Amazon (formerly TU Dresden)) Mona Alshahrani — PhD (alumnus) (Jubail University College (Assistant Professor)) Maxat Kulmanov — PhD (alumnus) (KAUST (Research Scientist)) Sumyyah

CompleX: Variant Prioritization in Complex Disease

Semantic methods for prioritising causative variants in complex (polygenic / oligogenic) disease using phenotype ontologies and gene network embeddings. Period: 2019–2021 Funding KAUST Competitive Research Grant — Grant ID: URF/1/3790-01-01 (PI) — USD 240,000 Team Robert Hoehndorf — PI (KAUST (Professor of Computer Science)) Paul N Schofield — CoI (University of Cambridge) Georgios V Gkoutos — CoI (University of Birmingham) Imane Boudellioua — PhD (alumnus) (King Fahd University of Petroleum and Minerals (Assistant Professor)) Mona Alshahrani — PhD (alumnus) (Jubail University College
crg explainable ml ontologies

Towards sound, complete, and explainable machine learning with biomedical ontologies (CRG11)

Faithful, complete, and explainable machine-learning methods on biomedical ontologies. Grant URF/1/5041-01-01 activated Apr 2023. Period: 2023–2026 Funding KAUST Competitive Research Grant (CRG11) — Grant ID: URF/1/5041-01-01 (PI) Team Robert Hoehndorf — PI (KAUST (Professor of Computer Science)) Fernando Zhapa-Camacho — PhD (alumnus), Postdoc (KAUST) Mahdi Bu Ali — MSc (alumnus) Tengwei Song — Postdoc (KAUST) Software AbermOWL — Cloud-based federated reasoning system combining AberOWL with mOWL for symbolic + approximate neuro-symbolic reasoning over SROIQ(D). https://github.com/bio-ontology