AI-powered semantic engineering¶

AI-powered semantic engineering is a pathways to help using AI more effectively.

This is a placeholder for a comprehensive Getting Started Guide at https://ai4curation.io/aidocs/ (follow issue here). https://ai4curation.io/aidocs/ complements OBO Academy and is developed by people deeply involved in both resources. We decided a separate resource was needed due to the large amount of new and experimental materials emerging in the era of AI.

Training materials¶

Efficient biocuration and bioinformatics with Claude Code: Part 1¶

October 14, 2025
Host: Christopher Tabone
Recording: Efficient Biocuration and Bioinformatics with Claude Code: Part 1
Materials: https://oboacademy.github.io/obook/tutorial/claude-code-getting-started/

Join us for Part 2 on December 9, 2025! Learn more about how to join here.

Generating SPARQL queries with ChatGPT¶

Join us November 11, 2025 (8am PT, 11am ET, 5pm CET) for this session hosted by Trish Whetzel.
Learn more about how to join here.

Using AI coding tools for ontology developers¶

June 9, 2025
Host: Chris Mungall
Recording: Using AI Coding Apps for Ontology Development
Slides: Using AI coding apps for ontology development
GitHub repository: https://github.com/ai4curation/obi-tutorial

Introduction to developing agentic workflows for semantic engineers¶

April 8, 2025
Host: Chris Mungall
Recording: Introduction to developing agentic workflows for semantic engineers
GitHub repository: https://github.com/ai4curation/agent-tutorial

OntoGPT: extract structured information from text with LLMs, instruction prompts, and ontology-based grounding¶

October 15, 2024
Host: Harry Caufield
Recording OntoGPT: Hands-on Workshop
GitHub repository: https://github.com/monarch-initiative/ontogpt
Publication: http://dx.doi.org/10.1093/bioinformatics/btae104

Structures and Instructors: applying the strengths of large language models to biomedical informatics¶

June 25, 2024
Host: Harry Caufield
Recording: Applying the Strengths of Large Language Models to Biomedical Informatics

AI-assisted ontology editing workflows: generating, augmenting, and validation¶

April 16, 2024 & March 5, 2024
Host: Chris Mungall
Recordings:
AI-assisted ontology editing workflows, Part 1
AI-assisted ontology editing workflows Part 2: Validation
Slides: AI-guided-curation-workflows