20 citations · 39 across the 6 of their papers we have counts for
6 papers
Evaluation of GPT and BERT-based models on identifying protein-protein interactions in biomedical text
Hasin Rehana, Nur Bengisu Çam, Mert Basmaci +5
Detecting protein-protein interactions (PPIs) is crucial for understanding genetic mechanisms, disease pathogenesis, and drug design. However, with the fast-paced growth of biomedi…
An Open Natural Language Processing Development Framework for EHR-based Clinical Research: A case demonstration using the National COVID Cohort Collaborative (N3C)
Sijia Liu, Andrew Wen, Liwei Wang +28
While we pay attention to the latest advances in clinical natural language processing (NLP), we can notice some resistance in the clinical and translational research community to a…
Ontology-based annotation and analysis of COVID-19 phenotypes
Yang Wang, Fengwei Zhang, Hong Yu +2
The epidemic of COVID-19 has caused an unpredictable and devastated disaster to the public health in different territories around the world. Common phenotypes include fever, cough,…
Ontology-based systematic classification and analysis of coronaviruses, hosts, and host-coronavirus interactions towards deep understanding of COVID-19
Hong Yu, Li Li, Hsin-hui Huang +17
Given the existing COVID-19 pandemic worldwide, it is critical to systematically study the interactions between hosts and coronaviruses including SARS-Cov, MERS-Cov, and SARS-CoV-2…
OntoPlot: A Novel Visualisation for Non-hierarchical Associations in Large Ontologies
Ying Yang, Michael Wybrow, Yuan-Fang Li +2
Ontologies are formal representations of concepts and complex relationships among them. They have been widely used to capture comprehensive domain knowledge in areas such as biolog…
HINO: a BFO-aligned ontology representing human molecular interactions and pathways
Yongqun He, Zoushuang Xiang
Many database resources, such as Reactome, collect manually annotated reactions, interactions, and pathways from peer-reviewed publications. The interactors (e.g., a protein), inte…