Dr Thomas Cokelaer | Senior Bioinformatician

This person is a member of Sanger Institute Alumni.

Cokelaer, Thomas


  • Cooperative development of logical modelling standards and tools with CoLoMoTo.

    Naldi A, Monteiro PT, Müssel C, Consortium for Logical Models and Tools, Kestler HA et al.

    Bioinformatics (Oxford, England) 2015;31;7;1154-9

  • Phosphoproteomic analyses reveal novel cross-modulation mechanisms between two signaling pathways in yeast.

    Vaga S, Bernardo-Faura M, Cokelaer T, Maiolica A, Barnes CA et al.

    Molecular systems biology 2014;10;767

  • MEIGO: an open-source software suite based on metaheuristics for global optimization in systems biology and bioinformatics.

    Egea JA, Henriques D, Cokelaer T, Villaverde AF, MacNamara A et al.

    BMC bioinformatics 2014;15;136

  • A community effort to assess and improve drug sensitivity prediction algorithms.

    Costello JC, Heiser LM, Georgii E, Gönen M, Menden MP et al.

    Nature biotechnology 2014;32;12;1202-12

  • Network topology and parameter estimation: from experimental design methods to gene regulatory network kinetics using a community based approach.

    Meyer P, Cokelaer T, Chandran D, Kim KH, Loh PR et al.

    BMC systems biology 2014;8;13

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

    Chaouiya C, Bérenguier D, Keating SM, Naldi A, van Iersel MP et al.

    BMC systems biology 2013;7;135

  • BioServices: a common Python package to access biological Web Services programmatically.

    Cokelaer T, Pultz D, Harder LM, Serra-Musach J and Saez-Rodriguez J

    Bioinformatics (Oxford, England) 2013;29;24;3241-2

  • Exhaustively characterizing feasible logic models of a signaling network using Answer Set Programming.

    Guziolowski C, Videla S, Eduati F, Thiele S, Cokelaer T et al.

    Bioinformatics (Oxford, England) 2013;29;18;2320-6

  • CellNOptR: a flexible toolkit to train protein signaling networks to data using multiple logic formalisms.

    Terfve C, Cokelaer T, Henriques D, MacNamara A, Goncalves E et al.

    BMC systems biology 2012;6;133

  • L-py: an L-system simulation framework for modeling plant architecture development based on a dynamic language.

    Boudon F, Pradal C, Cokelaer T, Prusinkiewicz P and Godin C

    Frontiers in plant science 2012;3;76

Cokelaer, Thomas