Research

How does a system change its behavior?

My current research centers on biological systems: enzyme function, metabolism, and cellular adaptation. The methodological thread is the integration of learning, mechanistic constraints, and experimental evidence.

The Persistent Gap: Data-rich models can detect patterns, while mechanistic models can enforce feasibility. Yet neither alone reliably explains or redesigns complex biological behavior. My research portfolio addresses that gap across sectors and scales.

The Consistent Scientific Objective: Determine why a biological state is possible, which constraints sustain it, and how those constraints can be measured, challenged, or redesigned.

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Choose an area, then explore each project's question, contribution, evidence, and resources.

Enzymes & Scientific AI

Project schematic showing enzyme sequence and substrate inputs, machine-learning frameworks, and enzyme-kinetics outputs.
Enzyme–substrate prediction · project artwork
Published + public software

CatRange: enzyme kinetics

Mutation-sensitive predictions of enzyme kinetic regimes, built around protein sequence, substrate chemistry, and curated evidence. CatRange (PNAS Nexus, 2026) and its precursor framework RealKcat (bioRxiv, 2025) together form this line of work.
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Conceptual Enzyme Copilot workflow linking literature, biochemical context and analysis tools to traceable hypotheses and researcher review.
Evidence-linked reasoning · conceptual schematic
In development

Enzyme Copilot

Evidence-linked mutation analysis that brings scientific language models, biochemical context, and tools into one research workflow.
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Metabolism & Adaptation

CorePredX Figure 1B showing a neural growth-rate model, SHAP importance, pathway interpretation and candidate hub genes.
CorePredX · published workflow
Published + public software

CorePredX: proteome & growth

Separating shared growth-associated proteins from environment-specific adaptation in a metabolically versatile bacterium.
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Published graphical abstract tracing Arabidopsis cell cultures and isotope-labeled metabolomics through turnover estimation, dynamic metabolic flux analysis, enzyme perturbations and enzyme-cost analysis.
Sphingolipid dynamics · graphical abstract
Published

Dynamic metabolic modeling

Isotope-informed dynamic modeling of plant sphingolipid metabolism, with uncertainty treated as part of the scientific problem.
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Disease & Immune Response

Conceptual DynPertBoost workflow integrating early cytokine, gene-expression and antibody observations to predict antibody responses across later time horizons.
Immune-response forecasting · conceptual schematic
Unpublished research

DynPertBoost: immune response

DynPertBoost: an unpublished temporal, multi-horizon ensemble framework for pertussis vaccination response.
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Control & Sensing

Conceptual greenhouse diagram showing candidate sensor positions and a measure, cluster and select workflow for representative environmental sensing.
Microclimate-based sensor placement · conceptual schematic
Published

Environmental sensing

Machine-learning-based sensor clustering for controlled-environment agriculture.
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