Mapping Targetable Sites on the Human Surfaceome for the Design of Novel Binders 1. A groundbreaking study maps the human surfaceome, identifying 4,500 targetable sites across 2,886 cell-surface proteins. This resource unlocks new therapeutic opportunities for precision medicine. 2. The study leverages MaSIF, a geometric deep-learning framework, to predict protein-protein interaction sites. Nearly 3 billion docking runs were performed to generate high-quality binder "seeds" for targeted design. 3. A novel web platform, SURFACE-Bind, is introduced. It provides open access to predicted binding sites, corresponding binder seeds, and data visualization tools. This resource aids drug discovery and protein design. 4. Experimental validation highlights three critical targets—FGFR2, IFNAR2, and HER3. De novo-designed binders showed high success rates, targeting key interfaces with nanomolar to micromolar affinities. 5. The team optimized protein design pipelines by integrating ProteinMPNN and AlphaFold2, improving biophysical properties like stability and binding affinity, achieving 11-fold higher success rates in subsequent rounds. 6. A peptide design pipeline was also developed. Interface motifs from mini-protein binders were stabilized as cyclized peptides, yielding 5 target-specific peptides with demonstrated binding activity. 7. This work underscores the power of integrating deep learning and physics-based methods to advance de novo protein and peptide design for therapeutic applications, targeting underexplored surfaceome regions. 8. By combining computational innovation with experimental validation, this research sets a new benchmark for precision protein engineering and opens the door to the next generation of biologics. @befcorreia @hamed_khakzad @yangche7 @SiFulle @J_Damjanovic_ 💻Code: github.com/hamedkhakzad/SURF… 📜Paper: biorxiv.org/content/10.1101/… #ProteinDesign #DeepLearning #Surfaceome #ComputationalBiology #DrugDiscovery #MachineLearning

The newly-funded VIB.AI Center in Leuven (Belgium) is recruiting 3 (!) group leaders focusing on answering fundamental biological questions with AI/ML. Great opportunity to join a dynamic community, with competitive conditions.

New amazing research from the @befcorreia lab! @zanderharteveld and Alexandra explore protein topologies that have not been found in nature using a novel deep learning pipeline called Genesis

Our paper with @befcorreia @CirauquiPablo et al on protein design using geometric deep learning is finally in @nature We show experimental results of diverse de novo designed binders nature.com/articles/s41586-0…

Hi #ProteinDesign and #AI #DrugDesign enthusiasts, please have a look to openings at Novo in US, UK, and DK and join a great team around @GreisenPer @KrisDeibler @yangche7 me and many others! novonordisk.com/careers/care…

The @befcorreia lab is looking for a postdoc! As a postdoc there myself, I can tell you that Lausanne is a stunning city, EPFL has a strong collaborative environment, and the lab researchis super exciting! On top of that, Bruno is a really chill dude 😎 recruiting.epfl.ch/Vacancies…

Great nice work from Zander and Jaume is finally out ! Glad to be part of the journey :)

preprint of a new paper with @befcorreia's group on using MaSIF #geometricdeeplearning architecture to build novel protein binders for various targets (oncological and antiviral)--with experimentally confirmed structure

A generic framework for hierarchical de novo protein design biorxiv.org/cgi/content/shor… #biorxiv_bioinfo

Congratulations to our Group Leader @befcorreia ! and great news for #proteindesign 👏

Check this cool protein switch out from our latest paper. Great work from Sailan and teams !!

It has been my pleasure to be around such a great crowd of scientists and human beings ! thank you for all the good things throughout the years

Huge congrats to our dear Bruno @befcorreia Correia for achieving tenure at the @EPFL_en: as of this October 1, he is Associate Professor of Bioengineering! Lucky us at @EPFL_BioE: now we can look forward to many more years with such a gem of a Colleague! actu.epfl.ch/news/bruno-corr…

Well deserved indeed! Congrats to @befcorreia

Congrats @befcorreia! Very well deserved recognition for an outstanding early-career investigator! @ProteinSociety

Congratulations to all @ProteinSociety award winners, and in particular to Toshiya Endo and @befcorreia showing that there is also great protein science research done outside of the US proteinsociety.org/page/prot…

Some PhD openings are also available in my lab for this round of hiring @epfl_edcb. If you are interested in membrane proteins and nanopore sensing, give a look at go.epfl.ch/edcb_openings

Scientists from @epflSV have made the first extensive study of the mode of action of the enzyme acyl thioesterase, which regulates #deacylation, one of the most critical functions of the cell @gvdgoot @matteodp actu.epfl.ch/news/revealing-…

Research Highlight by @DrArunimaSingh: TopoBuilder from @befcorreia enables de novo design of proteins bearing complex structural motifs. Papers: nature.com/articles/s41589-0… science.sciencemag.org/conte… Highlight: nature.com/articles/s41592-0…

A big shout out to @yangche7 @SesterhennF @jaumebonet for their brilliant contributions and hard work in our lab @EPFL_en . And also this would not be possible without the fantastic Rosetta community @RosettaCommons