Laurence Calzone

According to our database, Laurence Calzone authored at least 28 papers between 2006 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2024

scBoolSeq: Linking scRNA-seq statistics and Boolean dynamics.

Gustavo Magaña López, Laurence Calzone, Andrei Yu. Zinovyev, Loïc Paulevé

PLoS Comput. Biol., 2024

Building multiscale models with PhysiBoSS, an agent-based modeling tool.

Marco Ruscone, Andrea Checcoli, Randy W. Heiland, Emmanuel Barillot, Paul Macklin, Laurence Calzone, Vincent Noël

Briefings Bioinform., 2024

2022

Computational modelling in health and disease: highlights of the 6th annual SysMod meeting.

Anna Niarakis, Juilee Thakar, Matteo Barberis, María Rodríguez Martínez, Tomás Helikar, Marc R. Birtwistle, Claudine Chaouiya, Laurence Calzone, Andreas Dräger

Bioinform., October, 2022

BioSimulators: a central registry of simulation engines and services for recommending specific tools.

Bilal Shaikh, Lucian P. Smith, Dan Vasilescu, Gnaneswara Marupilla, Michael Wilson, Eran Agmon, Henry Agnew, Steven S. Andrews, Azraf Anwar, Moritz E. Beber, Frank T. Bergmann, David Brooks, Lutz Brusch, Laurence Calzone, Kiri Choi, Joshua Cooper, John Detloff, Brian Drawert, Michel Dumontier, G. Bard Ermentrout, James R. Faeder, Andrew P. Freiburger, Fabian Fröhlich, Akira Funahashi, Alan Garny, John H. Gennari, Padraig Gleeson, Anne Goelzer, Zachary B. Haiman, Jan Hasenauer, Joseph L. Hellerstein, Henning Hermjakob, Stefan Hoops, Jon C. Ison, Diego Jahn, Henry V. Jakubowski, Ryann Jordan, Matús Kalas, Matthias König, Wolfram Liebermeister, Rahuman S. Malik-Sheriff, Synchon Mandal, Robert A. McDougal, J. Kyle Medley, Pedro Mendes, Robert Müller, Chris J. Myers, Aurélien Naldi, Tung V. N. Nguyen, David P. Nickerson, Brett G. Olivier, Drashti Patoliya, Loïc Paulevé, Linda R. Petzold, Ankita Priya, Anand K. Rampadarath, Johann M. Rohwer, Ali Sinan Saglam, Dilawar Singh, Ankur Sinha, Jacky L. Snoep, Hugh Sorby, Ryan K. Spangler, Jörn Starruß, Payton J. Thomas, David D. van Niekerk, Daniel Weindl, Fengkai Zhang, Anna Zhukova, Arthur P. Goldberg, James C. Schaff, Michael L. Blinov, Herbert M. Sauro, Ion I. Moraru, Jonathan R. Karr

Nucleic Acids Res., 2022

BioSimulators: a central registry of simulation engines and services for recommending specific tools.

Bilal Shaikh, Lucian P. Smith, Dan Vasilescu, Gnaneswara Marupilla, Michael Wilson, Eran Agmon, Henry Agnew, Steven S. Andrews, Azraf Anwar, Moritz E. Beber, Frank T. Bergmann, David Brooks, Lutz Brusch, Laurence Calzone, Kiri Choi, Joshua Cooper, John Detloff, Brian Drawert, Michel Dumontier, G. Bard Ermentrout, James R. Faeder, Andrew P. Freiburger, Fabian Fröhlich, Akira Funahashi, Alan Garny, John H. Gennari, Padraig Gleeson, Anne Goelzer, Zachary B. Haiman, Joseph L. Hellerstein, Stefan Hoops, Jon C. Ison, Diego Jahn, Henry V. Jakubowski, Ryann Jordan, Matús Kalas, Matthias König, Wolfram Liebermeister, Synchon Mandal, Robert A. McDougal, J. Kyle Medley, Pedro Mendes, Robert Müller, Chris J. Myers, Aurélien Naldi, Tung V. N. Nguyen, David P. Nickerson, Brett G. Olivier, Drashti Patoliya, Loïc Paulevé, Linda R. Petzold, Ankita Priya, Anand K. Rampadarath, Johann M. Rohwer, Ali Sinan Saglam, Dilawar Singh, Ankur Sinha, Jacky L. Snoep, Hugh Sorby, Ryan K. Spangler, Jörn Starruß, Payton J. Thomas, David D. van Niekerk, Daniel Weindl, Fengkai Zhang, Anna Zhukova, Arthur P. Goldberg, Michael L. Blinov, Herbert M. Sauro, Ion I. Moraru, Jonathan R. Karr

CoRR, 2022

Addressing <i>barriers in comprehensiveness, accessibility, reusability, interoperability and reproducibility of computational models in systems biology</i>.

Anna Niarakis, Dagmar Waltemath, James A. Glazier, Falk Schreiber, Sarah M. Keating, David P. Nickerson, Claudine Chaouiya, Anne Siegel, Vincent Noël, Henning Hermjakob, Tomás Helikar, Sylvain Soliman, Laurence Calzone

Briefings Bioinform., 2022

2021

Personalized logical models to investigate cancer response to BRAF treatments in melanomas and colorectal cancers.

Jonas Béal, Lorenzo Pantolini, Vincent Noël, Emmanuel Barillot, Laurence Calzone

PLoS Comput. Biol., 2021

SysMod: the ISCB community for data-driven computational modelling and multi-scale analysis of biological systems.

Andreas Dräger, Tomás Helikar, Matteo Barberis, Marc R. Birtwistle, Laurence Calzone, Claudine Chaouiya, Jan Hasenauer, Jonathan R. Karr, Anna Niarakis, María Rodríguez Martínez, Julio Saez-Rodriguez, Juilee Thakar

Bioinform., 2021

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.

Anna Niarakis, Martin Kuiper, Marek Ostaszewski, Rahuman S. Malik-Sheriff, Cristina Casals-Casas, Denis Thieffry, Tom C. Freeman, Paul D. Thomas, Vasundra Touré, Vincent Noël, Gautier Stoll, Julio Saez-Rodriguez, Aurélien Naldi, Eugenia Oshurko, Ioannis Xenarios, Sylvain Soliman, Claudine Chaouiya, Tomás Helikar, Laurence Calzone

Briefings Bioinform., 2021

2020

Exact solving and sensitivity analysis of stochastic continuous time Boolean models.

Mihály Koltai, Vincent Noel, Andrei Yu. Zinovyev, Laurence Calzone, Emmanuel Barillot

BMC Bioinform., 2020

Synthesis and Simulation of Ensembles of Boolean Networks for Cell Fate Decision.

Stéphanie Chevalier, Vincent Noël, Laurence Calzone, Andrei Yu. Zinovyev, Loïc Paulevé

Proceedings of the Computational Methods in Systems Biology, 2020

2019

PhysiBoSS: a multi-scale agent-based modelling framework integrating physical dimension and cell signalling.

Gaëlle Letort, Arnau Montagud, Gautier Stoll, Randy W. Heiland, Emmanuel Barillot, Paul Macklin, Andrei Yu. Zinovyev, Laurence Calzone

Bioinform., 2019

Conceptual and computational framework for logical modelling of biological networks deregulated in diseases.

Arnau Montagud, Pauline Traynard, Loredana Martignetti, Eric Bonnet, Emmanuel Barillot, Andrei Yu. Zinovyev, Laurence Calzone

Briefings Bioinform., 2019

2017

MaBoSS 2.0: an environment for stochastic Boolean modeling.

Gautier Stoll, Barthélémy Caron, Eric Viara, Aurélien Dugourd, Andrei Yu. Zinovyev, Aurélien Naldi, Guido Kroemer, Emmanuel Barillot, Laurence Calzone

Bioinform., 2017

2016

Qualitative dynamics semantics for SBGN process description.

Adrien Rougny, Christine Froidevaux, Laurence Calzone, Loïc Paulevé

BMC Syst. Biol., 2016

2015

Mathematical Modelling of Molecular Pathways Enabling Tumour Cell Invasion and Migration.

David P. A. Cohen, Loredana Martignetti, Sylvie Robine, Emmanuel Barillot, Andrei Yu. Zinovyev, Laurence Calzone

PLoS Comput. Biol., 2015

Integrative Multi-omics Module Network Inference with Lemon-Tree.

Eric Bonnet, Laurence Calzone, Tom Michoel

PLoS Comput. Biol., 2015

NaviCell Web Service for network-based data visualization.

Eric Bonnet, Eric Viara, Inna Kuperstein, Laurence Calzone, David P. A. Cohen, Emmanuel Barillot, Andrei Yu. Zinovyev

Nucleic Acids Res., 2015

DeDaL: Cytoscape 3 app for producing and morphing data-driven and structure-driven network layouts.

Urszula Czerwinska, Laurence Calzone, Emmanuel Barillot, Andrei Yu. Zinovyev

BMC Syst. Biol., 2015

2013

Integrative Modelling of the Influence of MAPK Network on Cancer Cell Fate Decision.

Luca Grieco, Laurence Calzone, Isabelle Bernard-Pierrot, François Radvanyi, Brigitte Kahn-Perlès, Denis Thieffry

PLoS Comput. Biol., 2013

NaviCell: a web-based environment for navigation, curation and maintenance of large molecular interaction maps.

Inna Kuperstein, David P. A. Cohen, Stuart Pook, Eric Viara, Laurence Calzone, Emmanuel Barillot, Andrei Yu. Zinovyev

BMC Syst. Biol., 2013

BiNoM 2.0, a Cytoscape plugin for accessing and analyzing pathways using standard systems biology formats.

Eric Bonnet, Laurence Calzone, Daniel Rovera, Gautier Stoll, Emmanuel Barillot, Andrei Yu. Zinovyev

BMC Syst. Biol., 2013

2012

Continuous time boolean modeling for biological signaling: application of Gillespie algorithm.

Gautier Stoll, Eric Viara, Emmanuel Barillot, Laurence Calzone

BMC Syst. Biol., 2012

2010

Mathematical Modelling of Cell-Fate Decision in Response to Death Receptor Engagement.

Laurence Calzone, Laurent Tournier, Simon Fourquet, Denis Thieffry, Boris Zhivotovsky, Emmanuel Barillot, Andrei Yu. Zinovyev

PLoS Comput. Biol., 2010

2008

BiNoM: a Cytoscape plugin for manipulating and analyzing biological networks.

Andrei Yu. Zinovyev, Eric Viara, Laurence Calzone, Emmanuel Barillot

Bioinform., 2008

2007

Langages formels dans la machine abstraite biochimique BIOCHAM.

Laurence Calzone, Nathalie Chabrier-Rivier, François Fages, L. Fosse, Sylvain Soliman

Tech. Sci. Informatiques, 2007

2006

Machine Learning Biochemical Networks from Temporal Logic Properties.

Laurence Calzone, Nathalie Chabrier-Rivier, François Fages, Sylvain Soliman

Trans. Comp. Sys. Biology, 2006

BIOCHAM: an environment for modeling biological systems and formalizing experimental knowledge.

Laurence Calzone, François Fages, Sylvain Soliman

Bioinform., 2006