Author

Erik J. Bekkers

University of AmsterdamORCID 0000-0003-4418-2160Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 2

Signature Assays, Organisms & Methods

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Assay:protein structure· 2 Research Focus:protein structure prediction· 2 Approach:contrastive learning· 1 Approach:deep learning· 1 Approach:diffusion model· 1

Frequent Co-Authors

Li C. XueiD· 2 shared Amy L. KessleriD· 1 shared ChiaYu Lin· 1 shared Coos A. B. BaakmaniD· 1 shared Dani L. BodoriD· 1 shared Daniel T. RademakeriD· 1 shared Daniil LepikhoviD· 1 shared Dario F. MarzellaiD· 1 shared

Activity by Year

2023-2025 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 31 mutual co-author links

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2 shared papersBioinformatics

Li C. XueORCID

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2 papers

Recent·Most cited

BioinformaticsbioRxivPreprintApr 28, 2025

Fast and Accurate Peptide - MHC Structure Prediction via an Equivariant Diffusion Model

David Frühbuß, Coos A. B. Baakman, Siem Teusink…·Li C. Xue

MHC-Diff predicts peptide-MHC structures with high accuracy and speed using a diffusion model, outperforming existing methods.

1 citation

protein structurediffusion model

𝕏 PostBluesky

BioinformaticsbioRxivPreprintDec 4, 2023

Improving generalizability for MHC-I binding peptide predictions through geometric deep learning

Dario F. Marzella, Giulia Crocioni, Tadija Radusinović…·Li C. Xue

This paper improves MHC-I binding peptide prediction generalizability using geometric deep learning, outperforming sequence-based methods without binding affinity data.

4 citations

protein structuredeep learning

𝕏 PostBluesky