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Logical modelling of gene regulatory networks with GINsim.
Chaouiya C, Naldi A, Thieffry D. Chaouiya C, et al. Methods Mol Biol. 2012;804:463-79. doi: 10.1007/978-1-61779-361-5_23. Methods Mol Biol. 2012. PMID: 22144167
GINsim: a software suite for the qualitative modelling, simulation and analysis of regulatory networks.
Gonzalez AG, Naldi A, Sánchez L, Thieffry D, Chaouiya C. Gonzalez AG, et al. Among authors: chaouiya c. Biosystems. 2006 May;84(2):91-100. doi: 10.1016/j.biosystems.2005.10.003. Epub 2006 Jan 24. Biosystems. 2006. PMID: 16434137
Petri net modelling of biological networks.
Chaouiya C. Chaouiya C. Brief Bioinform. 2007 Jul;8(4):210-9. doi: 10.1093/bib/bbm029. Epub 2007 Jul 11. Brief Bioinform. 2007. PMID: 17626066 Review.
Segmenting the fly embryo: logical analysis of the role of the segment polarity cross-regulatory module.
Sánchez L, Chaouiya C, Thieffry D. Sánchez L, et al. Among authors: chaouiya c. Int J Dev Biol. 2008;52(8):1059-75. doi: 10.1387/ijdb.072439ls. Int J Dev Biol. 2008. PMID: 18956339
Logical modelling of regulatory networks with GINsim 2.3.
Naldi A, Berenguier D, Fauré A, Lopez F, Thieffry D, Chaouiya C. Naldi A, et al. Among authors: chaouiya c. Biosystems. 2009 Aug;97(2):134-9. doi: 10.1016/j.biosystems.2009.04.008. Epub 2009 May 6. Biosystems. 2009. PMID: 19426782
Modular logical modelling of the budding yeast cell cycle.
Fauré A, Naldi A, Lopez F, Chaouiya C, Ciliberto A, Thieffry D. Fauré A, et al. Among authors: chaouiya c. Mol Biosyst. 2009 Dec;5(12):1787-96. doi: 10.1039/B910101m. Epub 2009 Jul 31. Mol Biosyst. 2009. PMID: 19763337
Composition and abstraction of logical regulatory modules: application to multicellular systems.
Mendes ND, Lang F, Le Cornec YS, Mateescu R, Batt G, Chaouiya C. Mendes ND, et al. Among authors: chaouiya c. Bioinformatics. 2013 Mar 15;29(6):749-57. doi: 10.1093/bioinformatics/btt033. Epub 2013 Jan 22. Bioinformatics. 2013. PMID: 23341501
Logical modelling of regulatory networks, methods and applications.
Chaouiya C, Remy E. Chaouiya C, et al. Bull Math Biol. 2013 Jun;75(6):891-5. doi: 10.1007/s11538-013-9863-0. Bull Math Biol. 2013. PMID: 23722297 No abstract available.
Dynamical modeling and analysis of large cellular regulatory networks.
Bérenguier D, Chaouiya C, Monteiro PT, Naldi A, Remy E, Thieffry D, Tichit L. Bérenguier D, et al. Among authors: chaouiya c. Chaos. 2013 Jun;23(2):025114. doi: 10.1063/1.4809783. Chaos. 2013. PMID: 23822512
Majority rules with random tie-breaking in Boolean gene regulatory networks.
Chaouiya C, Ourrad O, Lima R. Chaouiya C, et al. PLoS One. 2013 Jul 26;8(7):e69626. doi: 10.1371/journal.pone.0069626. Print 2013. PLoS One. 2013. PMID: 23922761 Free PMC article.
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