Thomson, Matthew

Advisor — 16 thesises

• Chen, Xiaoqiao — Active Acquisition Methods for Single Cell Genomics (2025, Dissertation (Ph.D.))
• Lourenço, Alexandre Luiz — Building Closed-Loop Frameworks for AI-Guided Protein Design (2025, Dissertation (Ph.D.))
• Amaya Perez, Enrique — Designing Intelligent Agents for Real-Time Experimental Control and Multi-Task Generalization (2026, Dissertation (Ph.D.))
• Raghavan, Guruprasad — Engineering Artificial Systems with Natural Intelligence (2023, Dissertation (Ph.D.))
• Dobreva, Tatyana — Engineering Tools to Probe and Manipulate the Immune System at Single-Cell Resolution (2022, Dissertation (Ph.D.))
• Ross, Tyler David — Guiding Self-Organization in Active Matter with Spatiotemporal Boundary Conditions (2021, Dissertation (Ph.D.))
• Bhamidipati, Pranav Subramanyam — Modeling and Design of Synthetic Biochemical Circuits for Biological Phenotypes (2024, Dissertation (Ph.D.))
• Brown, David — Principles of Massively Parallel Sequencing for Engineering and Characterizing Gene Delivery (2022, Dissertation (Ph.D.))
• Liu, Shichen — Reconstituting Cellular Intelligence in Nonliving Biomolecular Matter (2026, Dissertation (Ph.D.))
• Jiang, Jialong — Revealing Regulatory Network Organization Through Single-Cell Perturbation Profiling and Maximum Entropy Models (2024, Dissertation (Ph.D.))
• Larios-Colorado, David Antonio — Reverse Engineering the Programming Logic of Cytoskeletal Dynamics (2026, Dissertation (Ph.D.))
• Subramanian, Arjuna Michael — Rewriting the Sequence and Structure Rules of Deep Protein Space (2026, Dissertation (Ph.D.))
• Flores-Bautista, Emanuel — The Topology of Cellular Ontogeny (2025, Dissertation (Ph.D.))
• Wang, Zitong (Jerry) — Theoretical and Computational Analysis of Cell Migration in Complex Tissue Environments (2025, Dissertation (Ph.D.))
• Zellinger, Michael J. — White Elephants and Cash Cows: Economically Wrangling the Zoo of AI Models (2026, Dissertation (Ph.D.))
• Martinez, Zachary A. — Tokens, Topologies, Taxa: Towards Declarative Biology and Bioengineering (2026, Dissertation (Ph.D.))