The Systems Biology Markup Language (SBML) Level 3 Package: Qualitative Models, Version 1, Release 1

Autor: Claudine, Chaouiya, Sarah M, Keating, Duncan, Berenguier, Aurélien, Naldi, Denis, Thieffry, Martijn P, van Iersel, Nicolas, Le Novère, Tomáš, Helikar

Publikováno v: Journal of integrative bioinformatics. 12(2)

Quantitative methods for modelling biological networks require an in-depth knowledge of the biochemical reactions and their stoichiometric and kinetic parameters. In many practical cases, this knowledge is missing. This has led to the development of

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=pmid________::2c5cfe270f690b4befa8344a65e56eba
https://pubmed.ncbi.nlm.nih.gov/26528568

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

Autor: Michel Page, Finja Büchel, Claudine Chaouiya, Benjamin Wicks, Nicolas Le Novère, Steffen Klamt, Bryan Kowal, Duncan Berenguier, Hidde de Jong, Axel von Kamp, Aurélien Naldi, Denis Thieffry, Andreas Dräger, Nicolas Rodriguez, Michael Hucka, Sarah M. Keating, Pedro T. Monteiro, Thomas Cokelaer, Julien Dorier, Emanuel Gonçalves, Julio Saez-Rodriguez, Ioannis Xenarios, Martijn P. van Iersel, Tomáš Helikar

Publikováno v: Repositório Científico de Acesso Aberto de Portugal
Repositório Científico de Acesso Aberto de Portugal (RCAAP)
instacron:RCAAP
BMC Systems Biology
BMC Systems Biology, 2013, 7 (1), pp.135. ⟨10.1186/1752-0509-7-135⟩
BMC Systems Biology, BioMed Central, 2013, 7 (1), pp.135. ⟨10.1186/1752-0509-7-135⟩
BMC Systems Biology, vol. 7, pp. 135
Chaouiya, Claudine; Bérenguier, Duncan; Keating, Sarah M; Naldi, Aurélien; van Iersel, Martijn P; Rodriguez, Nicolas; et al.(2013). SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools. BMC Systems Biology, 7(1), 135. doi: http://dx.doi.org/10.1186/1752-0509-7-135. Retrieved from: http://www.escholarship.org/uc/item/6sk6h7r7

Background: Qualitative frameworks, especially those based on the logical discrete formalism, are increasingly used to model regulatory and signalling networks. A major advantage of these frameworks is that they do not require precise quantitative da

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::62037b78eaf3653e0e82af02e9792d86

Logical modelling of regulatory networks with GINsim 2.3

Autor: Claudine Chaouiya, Fabrice Lopez, Denis Thieffry, Duncan Berenguier, Aurélien Naldi, Adrien Fauré

Publikováno v: Bio Systems. 97(2)

Many important problems in cell biology require the consideration of dense nonlinear interactions between functional modules. The requirement of computer simulation for the understanding of cellular processes is now widely accepted, and a variety of

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::3efba1807c8b83e35a785bd9a040523f
https://pubmed.ncbi.nlm.nih.gov/19426782