Wim F Vranken (Wim Vranken)

Scopus Author ID ResearcherID ORCID

Publication Activity (10 Years)

Years Active: 2015-2024
Publications (10 Years): 46

Top Venues

Nature communications

PLoS computational biology

Nature microbiology

NAR genomics and bioinformatics

Vrije Universiteit Brussel

Universiteit Gent (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

Vrije Universiteit Brussel Dec 01 2010

Belgium

Research professor :: Structural Biology Brussels

Vrije Universiteit Brussel Mar 01 2014 - Mar 01 2020

Belgium

Director (VUB) :: VUB/ULB Interuniversity Institute of bioinformatics in Brussels

Education History

Universiteit Gent Oct 01 1992 - Dec 19 1996

Belgium

PHD

Publications

Roswitha Dolcemascolo, María Heras-Hernández, Lucas Goiriz, Roser Montagud-Martínez, Alejandro Requena-Menéndez, Raúl Ruiz, Anna Pérez-Ràfols, R Anahí Higuera-Rodríguez, Guillermo Pérez-Ropero, Wim F Vranken, Tommaso Martelli, Wolfgang Kaiser, Jos Buijs, Guillermo Rodrigo
Repurposing the mammalian RNA-binding protein Musashi-1 as an allosteric translation repressor in bacteria. eLife 12 (2024)
David Bickel, Wim F Vranken
Effects of Phosphorylation on Protein Backbone Dynamics and Conformational Preferences. Journal of chemical theory and computation 20 (12) (2024)
Joel Roca-Martinez, Hyun-Seo Kang, Michael Sattler, Wim F Vranken
Analysis of the inter-domain orientation of tandem RRM domains with diverse linkers: connecting experimental with AlphaFold2 predicted models. NAR genomics and bioinformatics 6 (1) (2024)
Roswitha Dolcemascolo, María Heras-Hernández, Lucas Goiriz, Roser Montagud-Martínez, Alejandro Requena-Menéndez, Raúl Ruiz, Anna Pérez-Ràfols, R Anahí Higuera-Rodríguez, Guillermo Pérez-Ropero, Wim F Vranken, Tommaso Martelli, Wolfgang Kaiser, Jos Buijs, Guillermo Rodrigo
Repurposing the mammalian RNA-binding protein Musashi-1 as an allosteric translation repressor in bacteria. eLife 12 (2024)
Charlotte Crauwels, Sophie-Luise Heidig, Adrián Díaz, Wim F Vranken
Large-scale structure-informed multiple sequence alignment of proteins with SIMSApiper. Bioinformatics (Oxford, England) 40 (5) (2024)
Joel Roca-Martinez, Hyun-Seo Kang, Michael Sattler, Wim F Vranken
Analysis of the inter-domain orientation of tandem RRM domains with diverse linkers: connecting experimental with AlphaFold2 predicted models. NAR genomics and bioinformatics 6 (1) (2024)
David Bickel, Wim F Vranken
Effects of Phosphorylation on Protein Backbone Dynamics and Conformational Preferences. Journal of chemical theory and computation 20 (12) (2024)
Roswitha Dolcemascolo, María Heras-Hernández, Lucas Goiriz, Roser Montagud-Martínez, Alejandro Requena-Menéndez, Raúl Ruiz, Anna Pérez-Ràfols, R Anahí Higuera-Rodríguez, Guillermo Pérez-Ropero, Wim F Vranken, Tommaso Martelli, Wolfgang Kaiser, Jos Buijs, Guillermo Rodrigo
Repurposing the mammalian RNA-binding protein Musashi-1 as an allosteric translation repressor in bacteria. eLife 12 (2024)
Jose Gavalda-Garcia, David Bickel, Joel Roca-Martinez, Daniele Raimondi, Gabriele Orlando, Wim F Vranken
Data-driven probabilistic definition of the low energy conformational states of protein residues. NAR genomics and bioinformatics 6 (3) (2024)
Charlotte Crauwels, Sophie-Luise Heidig, Adrián Díaz, Wim F Vranken
Large-scale structure-informed multiple sequence alignment of proteins with SIMSApiper. Bioinformatics (Oxford, England) 40 (5) (2024)
David Bickel, Wim F Vranken
Effects of Phosphorylation on Protein Backbone Dynamics and Conformational Preferences. Journal of chemical theory and computation (2024)
Roswitha Dolcemascolo, María Heras-Hernández, Lucas Goiriz, Roser Montagud-Martínez, Alejandro Requena-Menéndez, Raúl Ruiz, Anna Pérez-Ràfols, R Anahí Higuera-Rodríguez, Guillermo Pérez-Ropero, Wim F Vranken, Tommaso Martelli, Wolfgang Kaiser, Jos Buijs, Guillermo Rodrigo
Repurposing the mammalian RNA-binding protein Musashi-1 as an allosteric translation repressor in bacteria. eLife 12 (2024)
Charlotte Crauwels, Sophie-Luise Heidig, Adrián Díaz, Wim F Vranken
Large-scale structure-informed multiple sequence alignment of proteins with SIMSApiper. Bioinformatics (Oxford, England) 40 (5) (2024)
David Bickel, Wim F Vranken
Effects of Phosphorylation on Protein Backbone Dynamics and Conformational Preferences. Journal of chemical theory and computation 20 (12) (2024)
Jose Gavalda-Garcia, David Bickel, Joel Roca-Martinez, Daniele Raimondi, Gabriele Orlando, Wim F Vranken
Data-driven probabilistic definition of the low energy conformational states of protein residues. NAR genomics and bioinformatics 6 (3) (2024)
Charlotte Crauwels, Sophie-Luise Heidig, Adrián Díaz, Wim F Vranken
Large-scale structure-informed multiple sequence alignment of proteins with SIMSApiper. Bioinformatics (Oxford, England) 40 (5) (2024)
Borja Alonso-Lerma, Ylenia Jabalera, Sara Samperio, Matias Morín, Almudena Fernández, Logan T Hille, Rachel A Silverstein, Ane Quesada-Ganuza, Antonio Reifs, Sergio Fernández-Peñalver, Yolanda Benitez, Lucia Soletto, Jose A Gavira, Adrian Diaz, Wim F Vranken, Avencia Sanchez-Mejias, Marc Güell, Francisco J M Mojica, Benjamin P Kleinstiver, Miguel Angel Moreno-Pelayo, Lluís Montoliu, Raul Perez-Jimenez
Evolution of CRISPR-associated endonucleases as inferred from resurrected proteins. Nature microbiology 8 (1) (2023)
Liselot Dewachter, Aaron N Brooks, Katherine Noon, Charlotte Cialek, Alia Clark-ElSayed, Thomas Schalck, Nandini Krishnamurthy, Wim Versées, Wim F Vranken, Jan Michiels
Deep mutational scanning of essential bacterial proteins can guide antibiotic development. Nature communications 14 (1) (2023)
Borja Alonso-Lerma, Ylenia Jabalera, Sara Samperio, Matias Morín, Almudena Fernández, Logan T Hille, Rachel A Silverstein, Ane Quesada-Ganuza, Antonio Reifs, Sergio Fernández-Peñalver, Yolanda Benitez, Lucia Soletto, Jose A Gavira, Adrian Diaz, Wim F Vranken, Avencia Sanchez-Mejias, Marc Güell, Francisco J M Mojica, Benjamin P Kleinstiver, Miguel Angel Moreno-Pelayo, Lluís Montoliu, Raul Perez-Jimenez
Evolution of CRISPR-associated endonucleases as inferred from resurrected proteins. Nature microbiology (2023)
Liselot Dewachter, Aaron N Brooks, Katherine Noon, Charlotte Cialek, Alia Clark-ElSayed, Thomas Schalck, Nandini Krishnamurthy, Wim Versées, Wim F Vranken, Jan Michiels
Author Correction: Deep mutational scanning of essential bacterial proteins can guide antibiotic development. Nature communications 14 (1) (2023)
Liselot Dewachter, Aaron N Brooks, Katherine Noon, Charlotte Cialek, Alia Clark-ElSayed, Thomas Schalck, Nandini Krishnamurthy, Wim Versées, Wim F Vranken, Jan Michiels
Deep mutational scanning of essential bacterial proteins can guide antibiotic development. Nature communications 14 (1) (2023)
Liselot Dewachter, Aaron N Brooks, Katherine Noon, Charlotte Cialek, Alia Clark-ElSayed, Thomas Schalck, Nandini Krishnamurthy, Wim Versées, Wim F Vranken, Jan Michiels
Deep mutational scanning of essential bacterial proteins can guide antibiotic development. Nature communications 14 (1) (2023)
Joel Roca-Martinez, Hrishikesh Dhondge, Michael Sattler, Wim F Vranken
Deciphering the RRM-RNA recognition code: A computational analysis. PLoS computational biology 19 (1) (2023)
Liselot Dewachter, Aaron N Brooks, Katherine Noon, Charlotte Cialek, Alia Clark-ElSayed, Thomas Schalck, Nandini Krishnamurthy, Wim Versées, Wim F Vranken, Jan Michiels
Deep mutational scanning of essential bacterial proteins can guide antibiotic development. Nature communications 14 (1) (2023)
Borja Alonso-Lerma, Ylenia Jabalera, Sara Samperio, Matias Morín, Almudena Fernández, Logan T Hille, Rachel A Silverstein, Ane Quesada-Ganuza, Antonio Reifs, Sergio Fernández-Peñalver, Yolanda Benitez, Lucia Soletto, Jose A Gavira, Adrian Diaz, Wim F Vranken, Avencia Sanchez-Mejias, Marc Güell, Francisco J M Mojica, Benjamin P Kleinstiver, Miguel Angel Moreno-Pelayo, Lluís Montoliu, Raul Perez-Jimenez
Evolution of CRISPR-associated endonucleases as inferred from resurrected proteins. Nature microbiology 8 (1) (2023)
Liselot Dewachter, Aaron N Brooks, Katherine Noon, Charlotte Cialek, Alia Clark-ElSayed, Thomas Schalck, Nandini Krishnamurthy, Wim Versées, Wim F Vranken, Jan Michiels
Author Correction: Deep mutational scanning of essential bacterial proteins can guide antibiotic development. Nature communications 14 (1) (2023)
Joel Roca-Martinez, Hrishikesh Dhondge, Michael Sattler, Wim F Vranken
Deciphering the RRM-RNA recognition code: A computational analysis. PLoS computational biology 19 (1) (2023)
Joel Roca-Martinez, Hrishikesh Dhondge, Michael Sattler, Wim F Vranken
Deciphering the RRM-RNA recognition code: A computational analysis. PLoS computational biology 19 (1) (2023)
Joel Roca-Martinez, Hrishikesh Dhondge, Michael Sattler, Wim F Vranken
Deciphering the RRM-RNA recognition code: A computational analysis. PLoS computational biology 19 (1) (2023)
Borja Alonso-Lerma, Ylenia Jabalera, Sara Samperio, Matias Morín, Almudena Fernández, Logan T Hille, Rachel A Silverstein, Ane Quesada-Ganuza, Antonio Reifs, Sergio Fernández-Peñalver, Yolanda Benitez, Lucia Soletto, Jose A Gavira, Adrian Diaz, Wim F Vranken, Avencia Sanchez-Mejias, Marc Güell, Francisco J M Mojica, Benjamin P Kleinstiver, Miguel Angel Moreno-Pelayo, Lluís Montoliu, Raul Perez-Jimenez
Evolution of CRISPR-associated endonucleases as inferred from resurrected proteins. Nature microbiology 8 (1) (2023)
Joel Roca-Martinez, Hrishikesh Dhondge, Michael Sattler, Wim F Vranken
Deciphering the RRM-RNA recognition code: A computational analysis. PLoS computational biology 19 (1) (2023)
Kamalesh D, Taushif Khan, David Bickel, Sreeshma Jaya, Wim F Vranken, Sudandiradoss C
New simulation insights on the structural transition mechanism of bovine rhodopsin activation. Proteins (2023)
Bálint Mészáros, Andras Hatos, Nicolas Palopoli, Federica Quaglia, Edoardo Salladini, Kim Van Roey, Haribabu Arthanari, Zsuzsanna Dosztányi, Isabella C Felli, Patrick D Fischer, Jeffrey C Hoch, Cy Michael Jeffries, Sonia Longhi, Emiliano Maiani, Sandra E Orchard, Rita Pancsa, Elena Papaleo, Roberta Pierattelli, Damiano Piovesan, Iva Pritisanac, Luiggi Tenorio, Thibault Viennet, Peter Tompa, Wim F Vranken, Silvio C E Tosatto, Norman E Davey
Minimum information guidelines for experiments structurally characterizing intrinsically disordered protein regions. Nature methods (2023)
Marie-Dominique Devignes, Malika Smaïl-Tabbone, Hrishikesh Dhondge, Roswitha Dolcemascolo, Jose Gavalda-Garcia, R Anahi Higuera-Rodriguez, Anna Kravchenko, Joel Roca Martínez, Niki Messini, Anna Pérez-Ràfols, Guillermo Pérez Ropero, Luca Sperotto, Isaure Chauvot de Beauchêne, Wim F Vranken
Experiences with a training DSW knowledge model for early-stage researchers. Open research Europe 3 (2023)
Liselot Dewachter, Aaron N Brooks, Katherine Noon, Charlotte Cialek, Alia Clark-ElSayed, Thomas Schalck, Nandini Krishnamurthy, Wim Versées, Wim F Vranken, Jan Michiels
Deep mutational scanning of essential bacterial proteins can guide antibiotic development. Nature communications 14 (1) (2023)
Liselot Dewachter, Aaron N Brooks, Katherine Noon, Charlotte Cialek, Alia Clark-ElSayed, Thomas Schalck, Nandini Krishnamurthy, Wim Versées, Wim F Vranken, Jan Michiels
Author Correction: Deep mutational scanning of essential bacterial proteins can guide antibiotic development. Nature communications 14 (1) (2023)
Liselot Dewachter, Aaron N Brooks, Katherine Noon, Charlotte Cialek, Alia Clark-ElSayed, Thomas Schalck, Nandini Krishnamurthy, Wim Versées, Wim F Vranken, Jan Michiels
Deep mutational scanning of essential bacterial proteins can guide antibiotic development. Nature communications 14 (1) (2023)
Borja Alonso-Lerma, Ylenia Jabalera, Sara Samperio, Matias Morín, Almudena Fernández, Logan T Hille, Rachel A Silverstein, Ane Quesada-Ganuza, Antonio Reifs, Sergio Fernández-Peñalver, Yolanda Benitez, Lucia Soletto, Jose A Gavira, Adrian Diaz, Wim F Vranken, Avencia Sanchez-Mejias, Marc Güell, Francisco J M Mojica, Benjamin P Kleinstiver, Miguel Angel Moreno-Pelayo, Lluís Montoliu, Raul Perez-Jimenez
Evolution of CRISPR-associated endonucleases as inferred from resurrected proteins. Nature microbiology 8 (1) (2023)
Dries Smets, Alexandra Tsirigotaki, Jochem H Smit, Srinath Krishnamurthy, Athina G Portaliou, Anastassia Andreevna Vorobieva, Wim F Vranken, Spyridoula Karamanou, Anastassios Economou
Evolutionary adaptation of the protein folding pathway for secretability. The EMBO journal 41 (23) (2022)
Luciano Porto Kagami, Gabriele Orlando, Daniele Raimondi, Francois Ancien, Bhawna Dixit, Jose Gavaldá-García, Pathmanaban Ramasamy, Joel Roca-Martínez, Konstantina Tzavella, Wim F Vranken
b2bTools: online predictions for protein biophysical features and their conservation. Nucleic acids research 49 (W1) (2021)
Luciano Kagami, Joel Roca-Martínez, Jose Gavaldá-García, Pathmanaban Ramasamy, K Anton Feenstra, Wim F Vranken
Online biophysical predictions for SARS-CoV-2 proteins. BMC molecular and cell biology 22 (1) (2021)
Tomasz Uchański, Simonas Masiulis, Baptiste Fischer, Valentina Kalichuk, Uriel López-Sánchez, Eleftherios Zarkadas, Miriam Weckener, Andrija Sente, Philip N Ward, Alexandre Wohlkönig, Thomas Zögg, Han K Remaut, James H Naismith, Hugues Nury, Wim F Vranken, A Radu Aricescu, Els Pardon, Jan Steyaert
Megabodies expand the nanobody toolkit for protein structure determination by single-particle cryo-EM. Nature methods 18 (1) (2021)
Daniele Raimondi, Gabriele Orlando, Rita Pancsa, Taushif Khan, Wim F Vranken
Author Correction: Exploring the Sequence-based Prediction of Folding Initiation Sites in Proteins. Scientific reports 9 (1) (2019)
Daniele Raimondi, Gabriele Orlando, Rita Pancsa, Taushif Khan, Wim F Vranken
Exploring the Sequence-based Prediction of Folding Initiation Sites in Proteins. Scientific reports 7 (1) (2017)
Damiano Piovesan, Francesco Tabaro, Ivan Mičetić, Marco Necci, Federica Quaglia, Christopher J Oldfield, Maria Cristina Aspromonte, Norman E Davey, Radoslav Davidović, Zsuzsanna Dosztányi, Arne Elofsson, Alessandra Gasparini, András Hatos, Andrey V Kajava, Lajos Kalmar, Emanuela Leonardi, Tamas Lazar, Sandra Macedo-Ribeiro, Mauricio Macossay-Castillo, Attila Meszaros, Giovanni Minervini, Nikoletta Murvai, Jordi Pujols, Daniel B Roche, Edoardo Salladini, Eva Schad, Antoine Schramm, Beata Szabo, Agnes Tantos, Fiorella Tonello, Konstantinos D Tsirigos, Nevena Veljković, Salvador Ventura, Wim F Vranken, Per Warholm, Vladimir N Uversky, A Keith Dunker, Sonia Longhi, Peter Tompa, Silvio C E Tosatto
DisProt 7.0: a major update of the database of disordered proteins. Nucleic acids research 45 (D1) (2016)
Rita Pancsa, Mihaly Varadi, Peter Tompa, Wim F Vranken
Start2Fold: a database of hydrogen/deuterium exchange data on protein folding and stability. Nucleic acids research 44 (D1) (2015)

Wim F Vranken.css-eqlu8i{font-size:small;padding-left:4px;} (Wim Vranken)

Publication Activity (10 Years)

Top Topics

Top Venues

Wim F Vranken (Wim Vranken)