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Modelling biological systems from molecules to dynamical networks. [PDF]
BMC Syst Biol, 2012 A report of the 5th IEEE International Conference on Systems Biology (IEEE ISB2011), 2-4 September 2011, Zhuhai, China.
Wang Y, Zhang XS, Chen L.
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Kinetic Modeling of Biological Systems [PDF]
, 2009 The dynamics of how the constituent components of a natural system interact defines the spatio-temporal response of the system to stimuli. Modeling the kinetics of the processes that represent a biophysical system has long been pursued with the aim of improving our understanding of the studied system. Due to the unique properties of biological systems,
Haluk Resat +2 more
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Modelling Coordination in Biological Systems [PDF]
Leveraging Applications of Formal Methods, 2006 We present an application of the Reo coordination paradigm to provide a compositional formal model for describing and reasoning about the behaviour of biological systems, such as regulatory gene networks. Reo governs the interaction and flow of data between components by allowing the construction of connector circuits which have a precise formal ...
Clarke, Dave +2 more
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Stochastic biological system-of-systems modelling for iPSC culture
Communications BiologyLarge-scale manufacturing of induced pluripotent stem cells (iPSCs) is essential for cell therapies and regenerative medicines. Yet, iPSCs form large cell aggregates in suspension bioreactors, resulting in insufficient nutrient supply and extra metabolic
Hua Zheng +3 more
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Compositional Modeling of Biological Systems [PDF]
, 2010 Molecular interactions are wired in a fascinating way resulting in complex behavior of bio-logical systems. Theoretical modeling provides us a useful framework for understanding the dynamics and the function of such networks. The complexity of the biological systems calls for conceptual tools that manage the combinatorial explosion of the set of ...
Judit Zámborszky
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Hybrid modelling of biological systems: current progress and future prospects
Briefings Bioinform., 2022 Integrated modelling of biological systems is becoming a necessity for constructing models containing the major biochemical processes of such systems in order to obtain a holistic understanding of their dynamics and to elucidate emergent behaviours ...
Fei Liu, M. Heiner, D. Gilbert
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Rewriting systems and the modelling of biological systems [PDF]
Comparative and Functional Genomics, 2004 AbstractThis paper gives a brief survey of the use of algebraic rewriting systems for modelling and simulating various biological processes, particularly at the cellular level. Copyright © 2004 John Wiley & Sons, Ltd.
Giavitto, Jean-Louis +2 more
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Mathematical modeling of biological systems [PDF]
Briefings in Bioinformatics, 2012 Mathematical and computational models are increasingly used to help interpret biomedical data produced by high-throughput genomics and proteomics projects. The application of advanced computer models enabling the simulation of complex biological processes generates hypotheses and suggests experiments. Appropriately interfaced with biomedical databases,
MOTTA, Santo, PAPPALARDO, FRANCESCO
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Inspecting the Solution Space of Genome-Scale Metabolic Models
Metabolites, 2022 Genome-scale metabolic models are frequently used in computational biology. They offer an integrative view on the metabolic network of an organism without the need to know kinetic information in detail.
Seyed Babak Loghmani +5 more
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Modeling adaptive biological systems [PDF]
Biosystems, 1989 During the evolution of many systems found in nature, both the system composition and the interactions between components will vary. Equating the dimension with the number of different components, a system which adds or deletes components belongs to a class of dynamical systems with a finite dimensional phase space of variable dimension. We present two
Bagley, R. J. +5 more
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