Qualitative simulation of genetic regulatory networks using piecewise-linear models

By Hidde de Jong, Jean-Luc Gouzé, Céline Hernandez, Michel Page, Tewfik Sari, Johannes Geiselmann. Bulletin of Mathematical Biology, 2004

454 citations recorded by the source corpus.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/54f5f3e930cea3d7c55ba690000a71c4c1ac952d

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Citations in the corpus

Bifurcations of piecewise smooth flows: Perspectives, methodologies and open problems (2012, background): “A few of the wide range of applications that exhibit piecewise smooth dynamics includemechanical problems of friction [27,19,28–31], switched feedback in control theory [32–35] and electronics [36–40], nonsmooth models in economics [41,42], ecology [43–45], neuron signalling [46–48], genetic potenti”
Stability Criteria for Switched and Hybrid Systems (2007, background): “If {A1, . . . , Am} is a collection of matrices which all satisfy the condition (4.9), then xTx must be a QLF for every individual system, and hence must be a CQLF for the collection.”
Genetic Network Analyzer: qualitative simulation of genetic regulatory networks (2003, methodology): “In de Jong et al. (2002b) a simulation algorithm is described that generates a set of qualitative behaviors by recursively determining qualitative states and transitions from qualitative states, starting at the qualitative state associated with the initial domain D0.”
A Filippov sliding vector field on an attracting co-dimension 2 discontinuity surface, and a limited loss-of-attractivity analysis☆ (2013, background): “[4,5,13,22]; for works on the class of complementarity systems, see [14], for works from the point of view of bifurcations of dynamical-systems see [7,16,15,19]; and, of course, see the classical references [3,11,26,27] for a thorough theoretical introduction to these systems.”
Validation of qualitative models of genetic regulatory networks by model checking: analysis of the nutritional stress response in Escherichia coli (2005, unknown): “The approach extends our previous work on a method for the qualitative modeling and simulation of genetic regulatory networks [12], supported by the computer tool Genetic Network Analyzer (GNA) [11].”
Quantitative and logic modelling of gene and molecular networks (2015, background): “Software such as the Genetic Network Analyzer (105) allows the construction of such models and the study of their possible stable states.”