Bruno Correia

bruno.correia@epfl.ch +41 21 693 61 66 https://www.epfl.ch/labs/lpdi/

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Nationalité: Portuguese

EPFL STI IBI-STI LPDI
AAB 0 44 (Bâtiment AAB)
Station 19
1015 Lausanne

Office: AAB 0 44
EPFL › STI › IBI-STI › LPDI

Site web: https://lpdi.epfl.ch

+41 21 693 61 66
EPFL › SV › SV-SSV › SSV-ENS

Site web: https://sv.epfl.ch/education

+41 21 693 61 66
EPFL › VPA › VPA-AVP-DLE › AVP-DLE-EDOC › EDBB-GE

Site web: https://go.epfl.ch/phd-edbb

+41 21 693 61 66
EPFL › VPA › VPA-AVP-DLE › AVP-DLE-EDOC › CDOCT

+41 21 693 61 66
EPFL › VPA › VPA-AVP-DLE › AVP-DLE-EDOC › EDBB-ENS

Biographie Prix et distinctions Publications Enseignement et PhD

Formation

2010 – 2010 Universidade Nova de Lisboa

2004 – 2004 Universidade de Coimbra

Expériences professionnelles

2015–2015

Institute of Bioengineering - EPFL

2011–2011

The Scripps Research Institute

Prix et distinctions

FundaÃ§Ã£o para a CiÃªncia e Tecnologia

2006

European Research Council

2016

Radcliffe Institute - Harvard

2018

EPFL - SV

2019

2021

Publications représentatives

De novo protein design enables precise induction of functional antibodies in vivo

Sesterhenn F*, Yang C*, Cramer JT, Bonet J, Wen X, Abriata LA, Kucharska I, Chiang CI, Wang Y, Castoro G, Vollers SS, Galloux M, Dheilly E, Richard CA, Rosset S, Corthesy P, Georgeon S, Villard M, Richard CA, Descamps D, Delgado T, Oricchio E, Rameix-Welti MA, Mas V, Ervin S, Eleouet JF, Riffault S, Bates JT, Julien JP, Li Y, Jardetzky T, Krey T, Correia BE
Published in Science, 2020 in

Computational design of anti-CRISPR proteins with improved inhibition potency and expanded specificity

Mathony J*, Harteveld Z*, Schmelas C*, Belzen JU, Aschenbrenner S, Hoffmann MD, Stengl C, Scheck A, Rosset S, Grimm D, Eils R, Correia BE*, Niopek D*
Published in Nature Chemical Biology, 2020 in

Macromolecular modeling and design in Rosetta: recent methods and frameworks

Leman JK, Weitzner BD, Lewis SM, Adolf-Bryfogle J, Alam N, Alford RF, Aprahamian M, Baker D, Barlow KA, Barth P, Basanta B, Bender BJ, Blacklock K, Bonet J, Boyken SE, Bradley P, Bystroff C, Conway P, Cooper S, Correia BE, Coventry B, Das R, De Jong RM, DiMaio F, Dsilva L, Dunbrack R, Ford AS, Frenz B, Fu DY, Geniesse C, Goldschmidt L, Gowthaman R, Gray JJ, Gront D, Guffy S, Horowitz S, Huang PS, Huber T, Jacobs TM, Jeliazkov JR, Johnson DK, Kappel K, Karanicolas J, Khakzad H, Khar KR, Khare SD, Khatib F, Khramushin A, King IC, Kleffner R, Koepnick B, Kortemme T, Kuenze G, Kuhlman B, Kuroda D, Labonte JW, Lai JK, Lapidoth G, Leaver-Fay A, Lindert S, Linsky T, London N, Lubin JH, Lyskov S, Maguire J, MalmstrÃ¶m L, Marcos E, Marcu O, Marze NA, Meiler J, Moretti R, Mulligan VK, Nerli S, Norn C, Ã“'ConchÃºir S, Ollikainen N, Ovchinnikov S, Pacella MS, Pan X, Park H, Pavlovicz RE, Pethe M, Pierce BG, Pilla KB, Raveh B, Renfrew PD, Burman SSR, Rubenstein A, Sauer MF, Scheck A, Schief W, Schueler-Furman O, Sedan Y, Sevy AM, Sgourakis NG, Shi L, Siegel JB, Silva DA, Smith S, Song Y, Stein A, Szegedy M, Teets FD, Thyme SB, Wang RY, Watkins A, Zimmerman L, Bonneau R
Published in Nature Methods, 2020 in

Computationally designed STOP-CAR disrupted by small molecule confers on-command regulation of T-cell therapy

Giordano-Attianese G*, Gainza P*, Gray-Gaillard E*, Cribioli E, Shui S, Kim S, Kwak M, Vollers S, Osorio A, Reichenbach P, Bonet J, Oh B, Irving M*, Coukos G*, Correia BE*
Published in Nature Biotechnology, 2020 in

Deciphering interaction fingerprints from protein molecular surfaces using geometric deep learning

Gainza P, Sverrisson F, Monti F, Rodola E, Bronstein MM, Correia BE
Published in Nature Methods, 2020 in

rstoolbox - a Python library for large-scale analysis of computational protein design data and structural bioinformatics

Bonet J, Harteveld Z, Sesterhenn F, Scheck A, Correia BE
Published in BMC Bioinformatics, 2019 in

Boosting subdominant neutralizing antibody responses with a computationally designed epitope-focused immunogen

Sesterhenn F, Galloux M, Vollers S, Cspregi L, Yang C, Descamps D, Bonet J, Friedensohn S, Gainza P, Corthesy P, Chen M, Rosset S, Rameix-Welti MA, Elouet JF, Reddy ST, Graham B, Riffault S, Correia BE
Published in Plos Biology, 2019 in

Rosetta FunFolDes - a general framework for the computational design of functional proteins

Bonet J*, Wehrle S*, Schriever K*, Yang C*, Billet A, Sesterhenn F, Scheck A, Sverrisson F, Veselkova B, Vollers S, Lourman R, Villard M, Rosset S, Krey T, Correia BE
Published in Plos Computational Biology, 2018 in

Engineered anti-CRISPR proteins for optogenetic control of CRISPR/Cas9

Bubeck F, Hoffmann M, Harteveld Z, Aschenbrenner S, Bietz A, Waldhauer MC, Boerner K, Fakhiri J, Schmelas C, Dietz L, Grimm D, Correia BE, Eils R, Niopek D
Published in Nature Methods, 2018 in

FragmentScope - exploring the fragment space with learned surface representations

E. Elizarova; I. Моrozova; I. Igashov; O. Gampp; D. R. P. Iosub et al.

2025

Bruno Correia

Formation

Expériences professionnelles

Prix et distinctions

Publications représentatives

FragmentScope - exploring the fragment space with learned surface representations

Accurate single-domain scaffolding of three nonoverlapping protein epitopes using deep learning

Mapping the latent CRBN-molecular glue degrader interactome

Leveraging protein representations to explore uncharted fold spaces with generative models

Structure-based Design of Chimeric Influenza Hemagglutinins to Elicit Cross-group Immunity

Rational design of chemically responsive cytokines for cancer immunotherapy

Structures of a synthetic antibody selected against and bound to the C‐terminal domain of <i>Clostridium perfringens</i> enterotoxin

De novo design of phosphorylation-induced protein switches for synthetic signaling in cells

One-shot Design of Functional Protein Binders with Bindcraft

Molecular basis for anti-jumbo phage immunity by AVAST Type 5

Humanized Caffeine-Inducible Systems for Controlling Cellular Functions

Mapping the Structural Landscape of Amyloid Fibrils to Guide Polymorph-Specific Therapeutics

Crowdsourced Protein Design: Lessons From the Adaptyv EGFR Binder Competition

Custom CRISPR—Cas9 PAM variants via scalable engineering and machine learning

Boltzdesign1: Inverting All-Atom Structure Prediction Model for Generalized Biomolecular Binder Design

Computationally designed stem-epitope mimetics elicit broadly reactive antibodies

Targeting protein-ligand neosurfaces with a generalizable deep learning tool

Boosting Protein Graph Representations through Static-Dynamic Fusion

AtomSurf: Surface Representation for Learning on Protein Structures

Computational Design of Protein Switches

Computational design of complex protein folds and soluble analogs of membrane proteins

Towards Conformational Targeting of Alpha-Synuclein Fibrils

The physiological landscape and specificity of antibody repertoires are consolidated by multiple immunizations

Mapping targetable sites on the human surfaceome for the design of novel binders

A deep mutational scanning platform to characterize the fitness landscape of anti-CRISPR proteins

Structure-based drug design with equivariant diffusion models

Epitope-focused immunogens targeting the hepatitis C virus glycoproteins induce broadly neutralizing antibodies

FSscore: A Personalized Machine Learning-Based Synthetic Feasibility Score

Dual ON/OFF-switch chimeric antigen receptor controlled by two clinically approved drugs

Exploring “dark-matter” protein folds using deep learning

Structures of the Foamy virus fusion protein reveal an unexpected link with the F protein of paramyxo- and pneumoviruses

BindCraft: one-shot design of functional protein binders

An evolved artificial radical cyclase enables the construction of bicyclic terpenoid scaffolds via an H-atom transfer pathway

V-111.4: PD-1 stimulation of human regulatory T cells using stimulating de novo miniprotein in vitro increased Foxp3/Helios expression

Drug-controlled CAR-T cells through the regulation of cell-cell interactions

Computational design of soluble and functional membrane protein analogues

Antibody-peptide conjugates deliver covalent inhibitors blocking oncogenic cathepsins

Accurate single domain scaffolding of three non-overlapping protein epitopes using deep learning

Opportunities and challenges in design and optimization of protein function

Equivariant 3D-conditional diffusion model for molecular linker design

Targeting protein-ligand neosurfaces using a generalizable deep learning approach

A Synthetic Multivalent Lipopeptide Derived from Pam3CSK4 with Irreversible Influenza Inhibition and Immuno-Stimulating Effects

An atlas of protein homo-oligomerization across domains of life

DiffTopo: Fold exploration using coarse grained protein topology representations

Engineering novel protein interactions with therapeutic potential using deep learning-guided surface design

Chemically disruptable molecule switch and use thereof

Predicting protein interactions using geometric deep learning on protein surfaces

Multi-motif scaffolding for de novo pathogen antigen mimetics by deep generative learning

A new age in protein design empowered by deep learning

Protein-based bandpass filters for controlling cellular signaling with chemical inputs

Rational design of small-molecule responsive protein switches

Rules and mechanisms governing G protein coupling selectivity of GPCRs

Discriminating physiological from non‐physiological interfaces in structures of protein complexes: A community‐wide study

Rational Design of Chemically Controlled Antibodies and Protein Therapeutics

De novo protein design by inversion of the AlphaFold structure prediction network

De novo design of protein interactions with learned surface fingerprints

De novo designed proteins: a study in engineering novel folds and functions

Computational design of vaccine immunogens

A generic framework for hierarchical de novo protein design

Assessing and enhancing foldability in designed proteins

Antibodies to combat viral infections: development strategies and progress

Computational design of novel protein–protein interactions – An overview on methodological approaches and applications

Novel chemically controlled cellular switches

A method and system for fast end-to-end learning on protein surfaces

Targeting molecular surfaces to engineer novel protein-based immunogens and inhibitors

Towards automating de novo protein design for novel functionalities: controlling protein folds and protein-protein interactions

Rational design of protein switches: applications in synthetic biology and cancer immunotherapy

Computational design of bioactive protein switches with multi-logics for cell-based therapeutics

A Nanoscaffolded Spike-RBD Vaccine Provides Protection against SARS-CoV-2 with Minimal Anti-Scaffold Response

Optimization of therapeutic antibodies by predicting antigen specificity from antibody sequence via deep learning

Modeling Immunity with Rosetta: Methods for Antibody and Antigen Design

Optogenetic control of Neisseria meningitidis Cas9 genome editing using an engineered, light-switchable anti-CRISPR protein

Bottom-up de novo design of functional proteins with complex structural features

Fast end-to-end learning on protein surfaces

On the exploration of novel methodological approaches for immunogen design: case studies in influenza and hepatitis C