Sergey Ovchinnikov

Career Trajectory

Research Cluster Map

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

• MSA Pairformer analysis data

  Zenodo (CERN European Organization for Nuclear Research) · 2026-06-09

• MSA Pairformer analysis data

  Zenodo (CERN European Organization for Nuclear Research) · 2026-06-09

• Protein Diffusion Models as Statistical Potentials

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-12-09 · 4 citations

• Designing novel solenoid proteins with in silico evolution

  Communications Chemistry · 2025-12-04 · 3 citations

• CIRPIN: Learning Circular Permutation-Invariant Representations to Uncover Putative Protein HomologsPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-11-18

• Hit or Miss: Understanding Emergence and Absence of Homo-oligomeric Contacts in Protein Language ModelsPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-11-17 · 2 citations

• Democratizing protein language model training, sharing and collaboration

  Nature Biotechnology · 2025-10-24 · 8 citations

• Protein Hunter: exploiting structure hallucination within diffusion for protein designPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-10-10 · 4 citations

• One-shot design of functional protein binders with BindCraft

  Universität Zürich, ZORA · 2025-08-27

• One-shot design of functional protein binders with BindCraft

  Nature · 2025-08-27 · 160 citations

• De novo design of a peptide modulator to reverse sodium channel dysfunction linked to cardiac arrhythmias and epilepsy

  Cell · 2025-08-18 · 16 citations

• Does Sequence Clustering Confound AlphaFold2?

  Journal of Molecular Biology · 2025-08-06 · 1 citations

• Scaling down protein language modeling with MSA PairformerPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-08-03 · 13 citations

• Accurate de novo design of high-affinity protein-binding macrocycles using deep learning

  Nature Chemical Biology · 2025-06-20 · 49 citations

• Artificial intelligence methods for protein folding and design

  Current Opinion in Structural Biology · 2025-06-11 · 21 citations

• Cyclic peptide structure prediction and design using AlphaFold2

  Nature Communications · 2025-05-21 · 56 citations

• SoftAlign: End-to-end protein structures alignmentPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-05-14 · 1 citations

• De novo Design of a Peptide Modulator to Reverse Sodium Channel Dysfunction Linked to Cardiac Arrhythmias and EpilepsyPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-04-28

• Designing Novel Solenoid Proteins with In Silico EvolutionPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-04-24 · 4 citations

• AF2χ: Predicting protein side-chain rotamer distributions with AlphaFold2Preprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-04-17 · 7 citations