Lun Ai
I am a Marie Skłodowska-Curie Fellow at EMBL’s European Bioinformatics Institute (EMBL-EBI) in Cambridge, UK, working with Julio Saez-Rodriguez. I received my PhD from Imperial College London, supervised by Stephen Muggleton.
I study how to monitor and control LLM agents, using scientific discovery in biology as the testbed. My research focuses on: (1) evaluating and controlling LLM agents in knowledge-intensive workflows, including when they game their evaluations and how external judges can govern them, and (2) whether model explanations faithfully convey what a model knows to a human overseer.
Where I have worked:
- EMBL’s European Bioinformatics Institute (EMBL-EBI), Marie Skłodowska-Curie Fellow (2026 -) and Postdoctoral Research Fellow (2025 - 2026)
- Imperial College London, Department of Life Sciences, Research Associate (2024 - 2025)
- Imperial College London, Department of Computing, PhD and Research Assistant (2019 - 2024)
Working with agents: I use coding agents every day in my research, and I keep experimenting with how to work with them better. When a way of working holds up, I package it as an open skill that anyone can drop into Claude Code, Codex or Gemini CLI. Two I use most:
- Want to learn a technical concept without the hassle? Mental gym lets you learn it by building it from scratch. The agent coaches you through a checklist one item at a time without writing the solution for you: it scaffolds a skeleton with hints, you fill the blanks, it critiques your attempt, then asks a depth question to check you really understood.
- Juggling many open research questions across many sessions? Research dashboard keeps them in one place. The agent groups questions into areas, keeps one dashboard plus a plan file per area with effort estimates, and writes every result back into both, so findings outlive the chat.
The rest are in lun-ai/skills. Feedback and ideas are welcome.
News
| Jun 01, 2026 | I started my Marie Skłodowska-Curie Fellowship at EMBL-EBI, where I will focus on using DREAM challenges, computational biology tasks that build predictive models, as a testbed to evaluate LLM agents and develop mechanisms to monitor and control them. |
|---|---|
| Mar 08, 2026 | I presented at face-to-face meeting of Kidney Precision Medicine Project on organising community-driven challenges as driver of treatment development for chronic kidney diseases. |
| Jan 26, 2026 | My work “Adaptive Data–Knowledge Alignment in Genetic Perturbation Prediction” with my student Yuanfang Xiang has been accepted to ICLR 2026. |
| Oct 19, 2025 | Our work on “Boolean matrix logic programming for active learning of gene functions in genome-scale metabolic network models” is published in Machine Learning Journal. |
| Sep 11, 2025 | I presented my sole-author work on “Boolean Matrix Logic Programming on the GPU” at the 5th International Joint Conference on Learning & Reasoning in Surrey UK. |
| May 01, 2025 | I am joining European Molecular Biology Laboratory (EMBL-EBI) to work with Julio Saez-Rodriguez on the Kidney Precision Medicine Project for discovering new molecular mechanisms that can inform novel treatment of chronic kidney diseases. |
| Nov 08, 2024 | I presented “Active Abductive Learning of Multigenic Interactions from High-Throughput Repression Screening Data” at AAAI Fall Symposium on Integrated Approaches to Computational Scientific Discovery (Online). |
| Sep 22, 2024 | I presented “Active learning of digenic functions with boolean matrix logic programming” at the 4th International Joint Conference of Learning and Reasoning (Nanjing, China). |
| May 01, 2024 | I received my PhD degree in Computing Research. Here is my thesis on “Effects of Machine-Learned Logic Theories on Human Comprehension in Machine-Human Teaching”. I truly appreciate Prof. Stephen Muggleton for the amazing support and examiners (Prof. Francesca Toni and Prof. Nick Chater) for their insightful feedback. |
| Nov 15, 2023 | I presented “A Comprehensible Framework to Active Learning Genome-Scale Metabolic Networks” at AAAI Fall Symposium on Artificial Intelligence for Synthetic Biology (Online). |