World's Best Scientists 2026 revealed!
Claudine Chaouiya

Claudine Chaouiya

D-Index & Metrics

Computer Science

D-Index
36
Citations
6728
World Ranking
11121
National Ranking
272

Overview

Claudine Chaouiya is affiliated with the Instituto Gulbenkian de Ciência in Portugal. Their research focuses on areas within biochemistry, genetics, and molecular biology, with an emphasis on molecular biology. They have contributed extensively to several subfields including computational theory and mathematics, biomedical engineering, cell biology, and cancer research.

The scientist's work covers a number of main topics, notably gene regulatory network analysis, bioinformatics and genomic networks, microbial metabolic engineering and bioproduction, fungal and yeast genetics research, biofuel production and bioconversion, cancer genomics and diagnostics, as well as formal methods in verification. These research themes are reflected in their publications and collaborations.

Claudine Chaouiya has published research in multiple venues, with frequent appearances in Bioinformatics, Briefings in Bioinformatics, and Peer Community In Mathematical and Computational Biology. Other venues include Molecular Systems Biology and Nucleic Acids Research.

Their recent notable papers include:

  • SBML Level 3: an extensible format for the exchange and reuse of biological models, 2020, Molecular Systems Biology
  • YEASTRACT+: a portal for the exploitation of global transcription regulation and metabolic model data in yeast biotechnology and pathogenesis, 2022, Nucleic Acids Research
  • Hybrid Epithelial-Mesenchymal Phenotypes Are Controlled by Microenvironmental Factors, 2020, Cancer Research
  • Setting the basis of best practices and standards for curation and annotation of logical models in biology-highlights of the [BC]2 2019 CoLoMoTo/SysMod Workshop, 2020, Briefings in Bioinformatics
  • Addressing barriers in comprehensiveness, accessibility, reusability, interoperability and reproducibility of computational models in systems biology, 2022, Briefings in Bioinformatics

Frequent co-authors of Claudine Chaouiya include:

  • Tomáš Helikar
  • Pedro T. Monteiro
  • Anna Niarakis
  • Julio Sáez-Rodríguez
  • Laurence Calzone

Best Publications

  • Dynamical analysis of a generic Boolean model for the control of the mammalian cell cycle

    Adrien Fauré;Aurélien Naldi;Claudine Chaouiya;Denis Thieffry

  • Petri net modelling of biological networks

    Claudine Chaouiya

  • Modeling ERBB receptor-regulated G1/S transition to find novel targets for de novo trastuzumab resistance

    Özgür Sahin;Holger Fröhlich;Christian Löbke;Ulrike Korf

  • SBML Level 3: an extensible format for the exchange and reuse of biological models

    Sarah M. Keating;Sarah M. Keating;Dagmar Waltemath;Matthias König;Fengkai Zhang

  • Logical Modeling and Dynamical Analysis of Cellular Networks.

    Wassim Abou-Jaoudé;Pauline Traynard;Pedro T. Monteiro;Pedro T. Monteiro;Julio Saez-Rodriguez

  • The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 1 Core.

    Michael Hucka;Frank T. Bergmann;Claudine Chaouiya;Andreas Dräger

  • GINsim: A software suite for the qualitative modelling, simulation and analysis of regulatory networks

    A. Gonzalez Gonzalez;A. Naldi;L. Sánchez;D. Thieffry

  • Logical modelling of regulatory networks with GINsim 2.3

    Aurélien Naldi;Duncan Bérenguier;Adrien Fauré;F. Lopez

  • Diversity and plasticity of Th cell types predicted from regulatory network modelling.

    Aurélien Naldi;Jorge Carneiro;Claudine Chaouiya;Denis Thieffry

  • SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools.

    Claudine Chaouiya;Duncan Bérenguier;Sarah M. Keating;Aurélien Naldi

  • Logical modelling of gene regulatory networks with GINsim.

    Claudine Chaouiya;Aurélien Naldi;Denis Thieffry

  • Large-scale generation of computational models from biochemical pathway maps

    Finja Büchel;Nicolas Rodriguez;Neil Swainston;Clemens Wrzodek

  • Path2Models: large-scale generation of computational models from biochemical pathway maps

    Finja Buchel;Finja Buchel;Nicolas Rodriguez;Nicolas Rodriguez;Neil Swainston;Clemens Wrzodek

  • Dynamically consistent reduction of logical regulatory graphs

    Aurélien Naldi;Elisabeth Remy;Denis Thieffry;Claudine Chaouiya

  • Decision diagrams for the representation and analysis of logical models of genetic networks

    Aurélien Naldi;Denis Thieffry;Claudine Chaouiya

  • Qualitative modelling of regulated metabolic pathways: application to the tryptophan biosynthesis in E.Coli

    E. Simão;E. Remy;D. Thieffry;C. Chaouiya

  • Petri net modelling of biological regulatory networks

    Claudine Chaouiya;Elisabeth Remy;Denis Thieffry

  • The CoLoMoTo Interactive Notebook: Accessible and Reproducible Computational Analyses for Qualitative Biological Networks

    Aurélien Naldi;Céline Hernandez;Nicolas Levy;Gautier Stoll

  • Qualitative Analysis of Regulatory Graphs: A Computational Tool Based on a Discrete Formal Framework.

    Claudine Chaouiya;Elisabeth Remy;Brigitte Mosse;Denis Thieffry

  • Qualitative Modelling of Genetic Networks: From Logical Regulatory Graphs to Standard Petri Nets

    Claudine Chaouiya;Elisabeth Remy;Paul Ruet;Denis Thieffry

  • A description of dynamical graphs associated to elementary regulatory circuits.

    Elisabeth Remy;Brigitte Mossé;Claudine Chaouiya;Denis Thieffry

  • Logical Modeling and Analysis of Cellular Regulatory Networks With GINsim 3.0.

    Aurélien Naldi;Céline Hernandez;Wassim Abou-Jaoudé;Pedro Tiago Monteiro

Frequent Co-Authors

Denis Thieffry
Denis Thieffry École Normale Supérieure
Julio Saez-Rodriguez
Julio Saez-Rodriguez Heidelberg University
Nicolas Le Novère
Nicolas Le Novère Babraham Institute
Laurence Calzone
Laurence Calzone PSL University
Michael Hucka
Michael Hucka California Institute of Technology
Falk Schreiber
Falk Schreiber University of Konstanz
Henning Hermjakob
Henning Hermjakob European Bioinformatics Institute
Ioannis Xenarios
Ioannis Xenarios University of Lausanne
Andrei Zinovyev
Andrei Zinovyev Institute Curie
Hidde de Jong
Hidde de Jong French Institute for Research in Computer Science and Automation - INRIA

If you think any of the details on this page are incorrect, let us know.

Report an issue

We appreciate your kind effort to assist us to improve this page, it would be helpful providing us with as much detail as possible in the text box below:

Related Online Degrees & Career Pathways

Exploring computer science in the USA opens a wide range of interdisciplinary career options and further study opportunities. As technology integrates deeply into every sector, related fields like accounting, criminal justice, and construction management increasingly rely on digital systems, data analysis, and secure information handling.

Those interested in law and technology may want to investigate a masters in criminology online, which offers insight into cybercrime and digital forensics. If you are drawn toward business, an online accounting degree equips you with both accounting principles and the tech skills needed for today’s data-driven workplaces.

The rapidly growing field of machine learning and analytics makes pursuing advanced data science degrees a natural step after a computer science background. Alternatively, practical skills can be developed through the best 2 year construction management degree online, perfect for those interested in technology’s impact on construction and project management.

All of these related online degrees offer flexible pathways to expand your expertise and open the door to dynamic, technology-driven careers.

Best Scientists Citing Claudine Chaouiya

Trending Scientists