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Computer Science

D-Index
39
Citations
12648
World Ranking
9508
National Ranking
92

Overview

Wim F. Vranken is a researcher affiliated with the Vrije Universiteit Brussel in Belgium. Their work primarily focuses on the field of Biochemistry, Genetics and Molecular Biology, contributing extensively to the understanding of molecular processes within these domains.

Their research spans several subfields including Molecular Biology, Spectroscopy, Materials Chemistry, Genetics, and Computational Theory and Mathematics. This multidisciplinary approach enables comprehensive investigations into biomolecular structures and mechanisms.

Wim F. Vranken's body of work covers key topics such as:

  • Protein Structure and Dynamics
  • RNA and protein synthesis mechanisms
  • Enzyme Structure and Function
  • Genomics and Phylogenetic Studies
  • Machine Learning in Bioinformatics
  • RNA Research and Splicing
  • Mass Spectrometry Techniques and Applications

Their recent publications reflect active contributions to various aspects of protein and molecular biology research. Selected papers include:

  • Critical assessment of protein intrinsic disorder prediction, 2021, Nature Methods
  • MobiDB: intrinsically disordered proteins in 2021, 2020, Nucleic Acids Research
  • The ACPYPE web server for small-molecule MD topology generation, 2023, Bioinformatics
  • Megabodies expand the nanobody toolkit for protein structure determination by single-particle cryo-EM, 2021, Nature Methods
  • PDBe-KB: collaboratively defining the biological context of structural data, 2021, Nucleic Acids Research

Wim collaborates frequently with several researchers, contributing to numerous joint studies. Regular coauthors include Jose Gavaldá-García, David Bickel, Joel Roca-Martínez, Adrián Díaz, and Pathmanaban Ramasamy.

The venues where Wim F. Vranken most often publishes include:

  • Zenodo (CERN European Organization for Nuclear Research)
  • bioRxiv (Cold Spring Harbor Laboratory)
  • Nucleic Acids Research
  • Bioinformatics
  • Journal of Molecular Biology

Best Publications

  • The CCPN data model for NMR spectroscopy: Development of a software pipeline

    Wim F. Vranken;Wayne Boucher;Tim J. Stevens;Rasmus H. Fogh

  • ACPYPE - AnteChamber PYthon Parser interfacE

    Alan W Sousa da Silva;Alan W Sousa da Silva;Wim F Vranken;Wim F Vranken

  • RECOORD: A recalculated coordinate database of 500+ proteins from the PDB using restraints from the BioMagResBank

    Aart J. Nederveen;Jurgen F. Doreleijers;Wim Vranken;Zachary Miller

  • DisProt 7.0: a major update of the database of disordered proteins.

    Damiano Piovesan;Francesco Tabaro;Francesco Tabaro;Ivan Micetic;Marco Necci

  • PDBe: Protein Data Bank in Europe

    S. Velankar;C. Best;B. Beuth;C. H. Boutselakis

  • DisProt: intrinsic protein disorder annotation in 2020.

    András Hatos;Borbála Hajdu-Soltész;Alexander M Monzon;Nicolas Palopoli

  • MobiDB: intrinsically disordered proteins in 2021.

    Damiano Piovesan;Marco Necci;Nahuel Escobedo;Alexander Miguel Monzon

  • MobiDB 3.0: more annotations for intrinsic disorder, conformational diversity and interactions in proteins.

    Damiano Piovesan;Francesco Tabaro;Lisanna Paladin;Marco Necci;Marco Necci

  • WeNMR: Structural Biology on the Grid

    Tsjerk A. Wassenaar;Marc Dijk;Nuno Loureiro-Ferreira;Gijs Schot

  • DEOGEN2: prediction and interactive visualization of single amino acid variant deleteriousness in human proteins.

    Daniele Raimondi;Daniele Raimondi;Ibrahim Tanyalcin;Julien Ferté;Andrea M. Gazzo

  • From protein sequence to dynamics and disorder with DynaMine

    Elisa Cilia;Rita Pancsa;Peter Tompa;Tom Lenaerts;Tom Lenaerts

  • Recommendations of the wwPDB NMR Validation Task Force.

    Gaetano T. Montelione;Michael Nilges;Michael Nilges;Ad Bax;Peter Güntert

  • The DynaMine webserver: predicting protein dynamics from sequence

    Elisa Cilia;Rita Pancsa;Peter Tompa;Tom Lenaerts

  • Remediation of the protein data bank archive

    Kim Henrick;Zukang Feng;Wolfgang Bluhm;Dimitris Dimitropoulos

  • E-MSD: the European Bioinformatics Institute Macromolecular Structure Database.

    Harry Boutselakis;Dimitris Dimitropoulos;Joël Fillon;Adel Golovin

  • E-MSD: an integrated data resource for bioinformatics

    Adel Golovin;Thomas J. Oldfield;John G. Tate;Samir S. Velankar

  • The CCPN project: an interim report on a data model for the NMR community.

    Rasmus Fogh;John Ionides;Eldon Ulrich;Wayne Boucher

  • CING: an integrated residue-based structure validation program suite

    Jurgen F. Doreleijers;Alan W. Sousa da Silva;Elmar Krieger;Sander B. Nabuurs

  • EUROCarbDB: An open-access platform for glycoinformatics

    Claus Wilhelm Von Der Lieth;Ana Ardá Freire;Dennis Blank;Matthew P. Campbell;Matthew P. Campbell

  • PDBe-KB: a community-driven resource for structural and functional annotations

    Mihaly Varadi;John Berrisford;Mandar Deshpande;Sreenath S. Nair

  • Corrigendum: DisProt 7.0: a major update of the database of disordered proteins.

    Damiano Piovesan;Francesco Tabaro;Ivan Mičetić;Marco Necci

  • DynaMine: From protein sequence to dynamics and disorder

    Elisa Cilia;Rita Pancsa;Peter Tompa;Tom Lenaerts

Frequent Co-Authors

Peter Tompa
Peter Tompa Vrije Universiteit Brussel
Alexandre M. J. J. Bonvin
Alexandre M. J. J. Bonvin Utrecht University
Silvio C. E. Tosatto
Silvio C. E. Tosatto University of Padua
Michael Nilges
Michael Nilges Université Paris Cité
Michele Vendruscolo
Michele Vendruscolo University of Cambridge
Ernest D. Laue
Ernest D. Laue University of Cambridge
Gaetano T. Montelione
Gaetano T. Montelione Rensselaer Polytechnic Institute
Norman E. Davey
Norman E. Davey Institute of Cancer Research
Sameer Velankar
Sameer Velankar European Bioinformatics Institute
Shoshana J. Wodak
Shoshana J. Wodak Vrije Universiteit Brussel

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