Claus O. Wilke

Career Trajectory

Research Cluster Map

Direct collaborators. Node size = influence, colour = community, dashed = past collaboration.

• Overestimating zero-shot fitness prediction: Broad benchmarks mask local failures and practical limitations

  bioRxiv (Cold Spring Harbor Laboratory) · 2026-06-07

• Availability of Charged tRNAs Drives Maximal Protein Synthesis at Intermediate Levels of Codon Usage Bias

  Bulletin of Mathematical Biology · 2026-01-14 · 1 citations

• A fold switch regulates conformation of an alphavirus RNA-dependent RNA polymerase

  Nucleic Acids Research · 2026-01-09 · 1 citations

• Scaling SMILES-based chemical language models for therapeutic peptide engineering

  bioRxiv (Cold Spring Harbor Laboratory) · 2026-01-07 · 2 citations

• p2smi: A toolkit enabling SMILES generation and property analysis for noncanonical and cyclized peptides

  The Journal of Open Source Software · 2025-12-09

• A fold switch regulates conformation of an alphavirus virus RNA-dependent RNA polymerasePreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-09-18 · 1 citations

• seabreeze: A Pipeline for Analyzing Structural Variation Between Bacterial Genome Assemblies

  The Journal of Open Source Software · 2025-07-24

• Mechanistic modeling or machine learning for detecting variants of concern: Why not both?

  Proceedings of the National Academy of Sciences · 2025-07-21 · 1 citations

• Antibacterial microcins are ubiquitous and functionally diverse across bacterial communities

  Nature Communications · 2025-07-01 · 8 citations

• Medium-sized protein language models perform well at transfer learning on realistic datasets

  Scientific Reports · 2025-07-01 · 19 citations

• Availability of charged tRNAs drives maximal protein synthesis at intermediate levels of codon usage biasPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-06-16

• Codon usage modulates the relationship between the burden and yield of protein overexpression

  Journal of Biological Engineering · 2025-05-23 · 8 citations

• p2smi: A Python Toolkit for Peptide FASTA-to-SMILES Conversion and Molecular Property AnalysisPreprint

  ArXiv.org · 2025-04-18 · 1 citations

• A systematic evaluation of the language-of-viral-escape model using multiple machine learning frameworks

  Journal of The Royal Society Interface · 2025-04-01 · 7 citations

• Peptide-Aware Chemical Language Model Successfully Predicts Membrane Diffusion of Cyclic Peptides

  Journal of Chemical Information and Modeling · 2025-01-08 · 20 citations

• A Linear Mixed Effects Model for Evaluating Synthetic Gene CircuitsPreprint

  ACS Synthetic Biology · 2024-12-30

• Modeling and measuring how codon usage modulates the relationship between burden and yield during protein overexpression in bacteriaPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2024-11-28

• Medium-sized protein language models perform well at transfer learning on realistic datasetsPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2024-11-24 · 11 citations

• Single-Cell Virology: On-Chip, Quantitative Characterization of the Dynamics of Virus Spread from One Single Cell to Another

  UNC Libraries · 2024-11-05

• A computational model for bacteriophage ϕX174 gene expression

  PLoS ONE · 2024-10-31 · 5 citations