Author

Aaron L. Feller

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#artificial intelligence Open access Oct 2026

Validation and analysis of 12,000 AI-driven CAR-T designs in the Bits to Binders competition.

Artificial intelligence (AI) methods for proteins have advanced rapidly, improving structure prediction and design, particularly for de novo binders. However, most evaluations emphasize binding affinity rather than higher-order biological function. We present Bits to Binders, a global competition evaluating de novo bin...

Clayton W. Kosonocky, Alex M. Abel, Aaron L. Feller et al. · Molecular Systems Biology · 6 citations · ⚡2

#machine learning Preprint Sep 2026

StabilityArc: Decoding Protein Sequence Embeddings into Generalizable Stability Landscapes

StabilityArc is presented, which maps frozen ESMC-600M residue representations through a shared RoPE transformer to an Lx20 matrix of substitution effects; a symmetric, contact-aware residual aids in predicting epistasis in simultaneous substitutions.

Aaron L. Feller, Andrew D. Ellington, Claus O. Wilke · 0 citations

#machine learning Preprint Jul 2026

Graph Learning on Ensembles of Cyclic Peptides: An Investigation of Molecular Ensemble Modeling

It is demonstrated that encoding conformational ensembles into a single thermodynamically informed embedding improves cyclic-peptide property prediction.

Aaron L. Feller, Kristine Deibler, Maxim Secor · 0 citations

Open access Aug 2026

Combining Machine Learning and Directed Evolution for Optimization of a Monooxygenase

A systematic comparison of zero-shot ML models is provided and an iterative framework for integrating machine learning with directed evolution to accelerate enzyme engineering is established to accelerate enzyme engineering.

Daniel Gutierrez, Isa Madrigal Harrison, Aaron L. Feller et al. · bioRxiv · 0 citations