Author

Simon de Givry

Institut National de Recherche pour l'Agriculture, l'Alimentation et l'EnvironnementORCID 0000-0002-2242-0458Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioengineering· 2 Bioinformatics· 1

Signature Assays, Organisms & Methods

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Approach:deep learning· 2 Research Focus:protein design· 2 Assay:protein sequence· 2 Organism:bacteria (other)· 1 Approach:experimental assay· 1 Research Focus:genome assembly· 1 Approach:statistical model· 1 Research Focus:variant calling· 1

Frequent Co-Authors

Thomas SchiexiD· 3 shared Delphine DessauxiD· 2 shared Gianluca CiociiD· 2 shared Lucie Barthe· 2 shared Luis Fernando Garcia-AllesiD· 2 shared Marianne DefresneiD· 2 shared Samuel BuchetiD· 2 shared Sophie BarbeiD· 2 shared

Activity by Year

2024-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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3 shared papersBioengineering

Thomas SchiexORCID

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3 papers

Recent·Most cited

A Generative Neuro-Symbolic AI for Protein Sequence Design

Marianne Defresne, Delphine Dessaux, Samuel Buchet, Lucie Barthe, Liza Ammar Khodja, Bessam Azizi, Valentin Durante, Gianluca Cioci, Simon de Givry, Alain Roussel, Luis Fernando Garcia-Alles, Thomas Schiex, Sophie Barbe

This paper introduces EffieDes, a neuro-symbolic AI framework for protein sequence design that combines deep learning with automated reasoning to generate sequences with complex functional properties.

Advanced Science · Jul 30, 2026Peer-reviewedBioengineering

Improving hifiasm haplotypes for autopolyploid genome assemblies using constraint programming

Christophe Klopp, Valentin Durante, Thomas Schiex, Simon de Givry

The paper improves hifiasm haplotype contigs for autopolyploid genomes by adding protein distribution constraints, enhancing balance and BUSCO scores.

bioRxiv · Apr 1, 2025 · PreprintBioinformatics

Designing symmetrical multi-component proteins using a hybrid generative AI approach

Delphine Dessaux, Samuel Buchet, Lucie Barthe, Marianne Defresne, Gianluca Cioci, Simon de Givry, Luis Fernando Garcia-Alles, Thomas Schiex, Sophie Barbe

This paper introduces a hybrid generative AI approach to design multi-component proteins by combining deep learning and automated reasoning, showing improved performance over existing methods in creating heteromeric assemblies.

bioRxiv · Jun 13, 2024 · PreprintBioengineering