Sign in

Océane Follonier

@oceanef.bsky.social
31 followers 59 following 0 posts
PostsRepliesMedia
Reposted by Océane Follonier
Pedro Beltrao @pedrobeltrao.bsky.social · 14/07/2026
Team science preprint, exploring the capabilities and limitations of Alphafold3 across different application areas, including protein-RNA, protein-lipid, ubiquitination,TCR and antibody recognition with @ninjani.bsky.social @labvanni.bsky.social @dgfeller.bsky.social www.biorxiv.org/content/10.6...
biorxiv.org
Capabilities, specificity gaps and training-data dependence of AlphaFold3 across diverse application areas
Structure prediction models have moved from single proteins to assemblies that include diverse biomolecules and their modifications. AlphaFold3 (AF3) and related models extended structural modelling v...
14822
Reposted by Océane Follonier
Daniil Litvinov @daniil-litvinov.bsky.social · 19/03/2026
I'm excited to share *Stoic*, a method for fast and accurate protein complex stoichiometry prediction directly from sequence. Preprint: www.biorxiv.org/content/10.6... 🧵👇(1/10)
biorxiv.org
24215
Reposted by Océane Follonier
Janani Durairaj (Jay) @ninjani.bsky.social · 11/02/2026
A fun little idea that worked surprisingly well, using a structure-informed yet structure-independent alphabet for de novo protein design: www.biorxiv.org/content/10.6... 🧵(1/n)
biorxiv.org
1347
Reposted by Océane Follonier
Lorenzo Pantolini @lorenzopantolini.bsky.social · 01/12/2025
Fresh from bioRxiv our latest work introducing The Embedded Alphabet (TEA), a powerful new representation for protein sequences obtained by discretising ESM2 embeddings into 20 characters. Pre-print: www.biorxiv.org/content/10.1... 🧵👇(1/n)
biorxiv.org
Rewriting protein alphabets with language models
Detecting remote homology with speed and sensitivity is crucial for tasks like function annotation and structure prediction. We introduce a novel approach using contrastive learning to convert protein...
13113
Reposted by Océane Follonier
SIB Swiss Institute of Bioinformatics @sib.swiss · 10/09/2025
Océane Follonier​ @oceanef.bsky.social for “From bytes to binders: design, score and optimize​” #bc2basel #posterprize
122
Reposted by Océane Follonier
Janani Durairaj (Jay) @ninjani.bsky.social · 21/02/2025
Some very cool stuff from the group now in paper form: “ModelArchive: a deposition database for computational macromolecular structural models” doi.org/10.1016/j.jm... And “Comparing macromolecular complexes - a fully automated benchmarking suite” doi.org/10.21203/rs.... (under review)
doi.org
Redirecting
02910
Reposted by Océane Follonier
Peter Škrinjar @peterskrinjar.bsky.social · 08/02/2025
Excited to share our latest preprint evaluating AlphaFold3, Boltz-1, Chai-1 and Protenix for predicting protein-ligand interactions, featuring our newly introduced benchmark dataset 🌹Runs N’ Poses🌹! www.biorxiv.org/content/10.1... 🧵👇 (1/n)
biorxiv.org
Have protein-ligand co-folding methods moved beyond memorisation?
Deep learning has driven major breakthroughs in protein structure prediction, however the next critical advance is accurately predicting how proteins interact with other molecules, especially small mo...
412438