Author

Faraneh Haddadi

Masaryk UniversityORCID 0000-0003-0787-3886Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Assay:protein structure· 2 Research Focus:benchmarking· 1 Approach:deep learning· 1 Approach:machine learning (classical)· 1 Research Focus:protein structure prediction· 1 Approach:statistical model· 1

Frequent Co-Authors

David BednářiD· 2 shared Jiřı́ DamborskýiD· 2 shared Stanislav MazurenkoiD· 2 shared Jan MičaniD· 1 shared Jan ŠtouračiD· 1 shared Jana HorackovaiD· 1 shared Janet M. ThorntoniD· 1 shared Joan Planas-IglesiasiD· 1 shared

Activity by Year

2024-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 33 mutual co-author links

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2 shared papersBioinformatics

David BednářORCID

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2 papers

Recent·Most cited

BioinformaticsbioRxivPreprintMay 29, 2026

ProtXAI: Explainable AI Reveals Structural Determinants of Protein Dynamics

Faraneh Haddadi, Joan Planas-Iglesias, Jan Mičan…·Stanislav Mazurenko

ProtXAI combines molecular dynamics and explainable AI to identify residue-level determinants of protein conformational changes across diverse systems.

DOI 10.64898/2026.05.26.727866

protein structuredeep learning

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BioinformaticsJournal of CheminformaticsPeer-reviewedOct 15, 2024

Large-scale Annotation of Biochemically Relevant Pockets and Tunnels in Cognate Enzyme-Ligand Complexes

Ondřej Vávra, Jonathan D. Tyzack, Faraneh Haddadi…·David Bednář

The paper develops a computational pipeline to annotate functional tunnels in enzyme-ligand complexes and validates it using molecular systems, showing it matches molecular dynamics simulations in speed and accuracy.

8 citations

protein structuremachine learning (classical)

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