GEPASI

swMATH7916MaRDI QIDQ19932FDOQ19932

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Official website: http://www.gepasi.org/

Cited In (48)

• An integrated model of glucose and galactose metabolism regulated by the GAL genetic switch
• A computational algebra approach to the reverse engineering of gene regulatory networks
• Title not available (Why is that?)
• From Petri Nets to Differential Equations – An Integrative Approach for Biochemical Network Analysis
• Applications and Theory of Petri Nets 2004
• Review: Game theory of public goods in one-shot social dilemmas without assortment
• \textit{NF}-\(\kappa B\) oscillations and cell-to-cell variability
• Numerical simulation of the in vivo fluorescence in plants
• Simulating cellular dynamics through a coupled transcription, translation, metabolic model.
• Modelling biochemical pathways through enhanced \(\pi\)-calculus
• Stochastic and delayed stochastic models of gene expression and regulation
• Prism
• MCELL
• PySCeS
• Stella
• E-CELL
• MetaModel
• Cellware
• KinFitSim
• MEG
• Bio-SPICE
• BDI-modelling of complex intracellular dynamics
• The markup is the model: reasoning about systems biology models in the semantic web era
• Virtual Cell
• SGN Sim
• DynaFit
• KINFIT
• STOCHSIM
• On the approaches applied in formulation of a kinetic model of photosystem II: different approaches lead to different simulations of the chlorophyll \textit{a} fluorescence transients
• Perturbation theory in the catalytic rate constant of the Henri-Michaelis-Menten enzymatic reaction
• Quantifying macrophage defects in type 1 diabetes
• JigCell
• MoVisPP
• VisANT
• REVEAL
• Simulations show that a small part of variable chlorophyll \(a\) fluorescence originates in photosystem I and contributes to overall fluorescence rise
• A general biochemical kinetics data fitting algorithm for quasi-steady-state detection
• Yeast glycolytic oscillations that are not controlled by a single oscillophore: a new definition of oscillophore strength
• Nonlinear effects in macromolecular assembly and dosage sensitivity
• KINSOLVER: A simulator for computing large ensembles of biochemical and gene regulatory networks
• A theoretical study on effect of the initial redox state of cytochrome \(b_{559}\) on maximal chlorophyll fluorescence level (\(F_M\)): implications for photoinhibition of photosystem II
• Chlorophyll \(a\) fluorescence rise induced by high light illumination of dark-adapted plant tissue studied by means of a model of photosystem II and considering photosystem II heterogeneity
• A fully adaptive reaction-diffusion integration scheme with applications to systems biology
• Genome-Wide Discovery of Modulators of Transcriptional Interactions in Human B Lymphocytes
• Control of glutathione and phytochelatin synthesis under cadmium stress. Pathway modeling for plants
• Petri net models for the semi-automatic construction of large scale biological networks
• A framework for whole-cell mathematical modeling
• Trading public goods stabilizes interspecific mutualism

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