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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 Malik Sheriff , Cristina Casals-Casas , et al.
Briefings in Bioinformatics, 2021, 22 (2), pp.1848--1859. ⟨10.1093/bib/bbaa046⟩
Journal articles hal-02549796v1
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Continuous time Boolean modeling for biological signaling: application of Gillespie algorithm.

Gautier Stoll , Eric Viara , Emmanuel Barillot , Laurence Calzone
BMC Systems Biology, 2012, 6 (1), pp.116. ⟨10.1186/1752-0509-6-116⟩
Journal articles inserm-00762304v1
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Mathematical modelling of cell-fate decision in response to death receptor engagement.

Laurence Calzone , Laurent Tournier , Simon Fourquet , Denis Thieffry , Boris Zhivotovsky , et al.
PLoS Computational Biology, 2010, 6 (3), pp.e1000702. ⟨10.1371/journal.pcbi.1000702⟩
Journal articles inserm-00704979v1
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Mathematical Modelling of Molecular Pathways Enabling Tumour Cell Invasion and Migration

David P A Cohen , Loredana Martignetti , Sylvie Robine , Emmanuel Barillot , Andrei Zinovyev , et al.
PLoS Computational Biology, 2015, 11 (11), pp.e1004571. ⟨10.1371/journal.pcbi.1004571⟩
Journal articles inserm-02141625v1
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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 , et al.
BMC Systems Biology, 2013, 7 (1), pp.18. ⟨10.1186/1752-0509-7-18⟩
Journal articles inserm-00820930v1
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A comprehensive approach to the molecular determinants of lifespan using a Boolean model of geroconversion

Loic Verlingue , Aurélien Dugourd , Gautier Stoll , Emmanuel Barillot , Laurence Calzone , et al.
Aging Cell, 2016, 15 (6), pp.1018-1026. ⟨10.1111/acel.12504⟩
Journal articles hal-01366791v1
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NaviCell: a web-based environment for navigation, curation and maintenance of large molecular interaction maps.

Inna Kuperstein , David Cohen , Stuart Pook , Eric Viara , Laurence Calzone , et al.
BMC Systems Biology, 2013, 7 (1), pp.100. ⟨10.1186/1752-0509-7-100⟩
Journal articles inserm-00872428v1

On circuit functionality in Boolean networks

Jean-Paul Comet , Mathilde Noual , Adrien Richard , J. Aracena , Laurence Calzone , et al.
Bulletin of Mathematical Biology, 2013, 75 (6), pp.906-919. ⟨10.1007/s11538-013-9829-2⟩
Journal articles istex hal-01242396v1