Publications
Preprints
An inductive, supervised approach for predicting gene--disease associations using phenotype ontologies
Fully Geometric Multi-Hop Reasoning on Knowledge Graphs with Transitive Relations
Selected Publications
Lattice-Based ALC Ontology Embeddings With Saturation (Extended Version)
Ontology Embedding: A Survey of Methods, Applications and Resources
Neuro-Symbolic AI in Life Sciences
Robert Hoehndorf, Catia Pesquita, Fernando Zhapa-Camacho
Lattice-preserving ALC ontology embeddings
Predicting protein functions using positive-unlabeled ranking with ontology-based priors
From axioms over graphs to vectors, and back again: evaluating the properties of graph-based ontology embeddings
mOWL: Python library for machine learning with biomedical ontologies
Additional Publications
Prioritizing genomic variants through neuro-symbolic, knowledge-enhanced learning
Bioinformatics, Volume 40, Issue 5Azza Althagafi, Fernando Zhapa-Camacho, Robert Hoehndorf
Evaluating Different Methods for Semantic Reasoning Over Ontologies
SemREC 2023Fernando Zhapa-Camacho, Robert Hoehndorf
A-LIOn - Alignment Learning through Inconsistency negatives of the aligned Ontologies
The 17th International Workshop on Ontology MatchingSarah M. Alghamdi, Fernando Zhapa-Camacho, Robert Hoehndorf
DeepGOWeb: fast and accurate protein function prediction on the (Semantic) Web
Nucleic Acids ResearchMaxat Kulmanov, Fernando Zhapa-Camacho, Robert Hoehndorf