R. Dustin Schaeffer

Career Trajectory

Research Cluster Map

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

• Domain classification of archaeal proteomes reveals conserved fold repertoire

  bioRxiv (Cold Spring Harbor Laboratory) · 2026-04-06

• Domain classification of archaeal proteomes reveals conserved fold repertoire — data and code

  Zenodo (CERN European Organization for Nuclear Research) · 2026-03-28

• Domain classification of archaeal proteomes reveals conserved fold repertoire — data and code

  Zenodo (CERN European Organization for Nuclear Research) · 2026-03-28

• Using evolutionary context to classify difficult protein folds

  PLoS Computational Biology · 2025-12-01

• Exploring the Terra incognita of <scp>AI</scp> ‐based domain classifications

  Protein Science · 2025-11-25

• Assessment of Protein Complex Predictions in <scp>CASP16</scp> : Are We Making Progress?

  Proteins Structure Function and Bioinformatics · 2025-10-31 · 7 citations

• ECOD: Classification of domains in AFDB Swiss-Prot structure predictionsPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-08-17

• <scp>CASP16</scp> Protein Monomer Structure Prediction Assessment

  Proteins Structure Function and Bioinformatics · 2025-08-17 · 11 citations

• DrugDomain 2.0: comprehensive database of protein domains-ligands/drugs interactions across the whole Protein Data BankPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-07-07

• Author response for "CASP16 Protein Monomer Structure Prediction Assessment"

  2025-07-02

• CASP16 protein monomer structure prediction assessmentPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-06-02 · 5 citations

• Assessment of Protein Complex Predictions in CASP16: Are we making progress?Preprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-05-30 · 10 citations

• Case Studies of Orphan Domain Reclassification in <scp>ECOD</scp> by Expert Curation

  Proteins Structure Function and Bioinformatics · 2025-05-26 · 1 citations

• Leveraging AI to explore structural contexts of post-translational modifications in drug binding

  Journal of Cheminformatics · 2025-05-04 · 17 citations

• Refinement and curation of homologous groups facilitated by structure prediction

  Protein Science · 2025-02-19

• Leveraging AI to Explore Structural Contexts of Post-Translational Modifications in Drug BindingPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-01-19 · 2 citations

• DrugDomain 2.0: Comprehensive database of protein domains-ligands/drugs interactions across the whole Protein Data Bank

  Computational and Structural Biotechnology Journal · 2025-01-01

• The Pfam protein families database: embracing AI/ML

  Nucleic Acids Research · 2024-11-14 · 267 citations

• Bridging the Gap between Sequence and Structure Classifications of Proteins with AlphaFold Models

  Journal of Molecular Biology · 2024-08-26 · 13 citations

• <scp>DrugDomain</scp> : The evolutionary context of drugs and small molecules bound to domains

  Protein Science · 2024-07-09 · 7 citations