Systems Biology Modelling and Analysis 2022
DOI: 10.1002/9781119716600.ch6
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Boolean Networks and Their Dynamics: The Impact of Updates

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Cited by 8 publications
(3 citation statements)
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“…There is a vast zoo of update modes (Paulevé and Sené, 2022), but traditionally, two modes are usually considered in biological modeling: the synchronous (or parallel) deterministic mode, where the next configuration is given by its application to f (x is succeeded by f (x)), and the fully asynchronous (often denoted only asynchronous) where the next configuration results from the application of only one local function, chosen non-deterministically.…”
Section: Update Modesmentioning
confidence: 99%
“…There is a vast zoo of update modes (Paulevé and Sené, 2022), but traditionally, two modes are usually considered in biological modeling: the synchronous (or parallel) deterministic mode, where the next configuration is given by its application to f (x is succeeded by f (x)), and the fully asynchronous (often denoted only asynchronous) where the next configuration results from the application of only one local function, chosen non-deterministically.…”
Section: Update Modesmentioning
confidence: 99%
“…Given a BN f and a configuration x, the update mode specifies how to compute the next configuration. There is a vast zoo of update modes (Paulevé and Sené, 2022), but traditionally, two modes are usually considered in biological modeling: the synchronous (or parallel) deterministic mode, where the next configuration is given by its application to f (x is succeeded by f (x)), and the fully asynchronous (often denoted only asynchronous) where the next configuration results from the application of only one local function, chosen non-deterministically.…”
Section: Introductionmentioning
confidence: 99%
“…However, (a)synchronous update modes do not lead to a complete qualitative abstraction of quantitative systems and preclude the prediction of trajectories that are actually feasible when considering time scales or concentration scales. The Most Permissive (MP) (Paulevé, Kolčák, Chatain, and Haar, 2020;Paulevé and Sené, 2021) is a recently-introduced update mode which brings the formal guarantee to capture any trajectory that is feasible by any quantitative system compatible with the Boolean network (see (Paulevé et al, 2020) for details). The main idea behind the MP update mode is to systematically consider a potential delay when a component changes state, and consider any additional transitions that could occur if the changing component is in an intermediate state.…”
Section: Introductionmentioning
confidence: 99%