Results 41 to 50 of about 1,232,205 (304)
Inferring Biologically Relevant Models: Nested Canalyzing Functions [PDF]
, 2010 Inferring dynamic biochemical networks is one of the main challenges in systems biology. Given experimental data, the objective is to identify the rules of interaction among the different entities of the network.
Hinkelmann, Franziska +1 more
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A Bayesian active learning strategy for sequential experimental design in systems biology
BMC Systems Biology, 2014 BackgroundDynamical models used in systems biology involve unknown kinetic parameters. Setting these parameters is a bottleneck in many modeling projects. This motivates the estimation of these parameters from empirical data.
Edouard Pauwels +2 more
semanticscholar +1 more source
British Journal for the Philosophy of Science, 2020 Molecular biologists exploit information conveyed by mechanistic models for experimental purposes. In this article, I make sense of this aspect of biological practice by developing Keller’s idea of the distinction between ‘models of’ and ‘models for ...
E. Ratti
semanticscholar +1 more source
Model to Link Cell Shape and Polarity with Organogenesis
iScience, 2020 Summary: How do flat sheets of cells form gut and neural tubes? Across systems, several mechanisms are at play: cells wedge, form actomyosin cables, or intercalate. As a result, the cell sheet bends, and the tube elongates.
Bjarke Frost Nielsen +4 more
doaj +1 more source
Optimal Experimental Design Based on Two-Dimensional Likelihood Profiles
Frontiers in Molecular Biosciences, 2022 Dynamic behavior of biological systems is commonly represented by non-linear models such as ordinary differential equations. A frequently encountered task in such systems is the estimation of model parameters based on measurement of biochemical compounds.
Tim Litwin +8 more
doaj +1 more source
The sloppy model universality class and the Vandermonde matrix
, 2006 In a variety of contexts, physicists study complex, nonlinear models with many unknown or tunable parameters to explain experimental data. We explain why such systems so often are sloppy; the system behavior depends only on a few `stiff' combinations of ...
C. Lanczos +13 more
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Journal of Integrative Bioinformatics, 2008 The paradigmatic shift occurred in biology that led first to high-throughput experimental techniques and later to computational systems biology must be applied also to the analysis paradigm of the relation between local models and data to obtain an ...
Segata Nicola +2 more
doaj +2 more sources
Experimental design for parameter estimation of gene regulatory networks. [PDF]
PLoS ONE, 2012 Systems biology aims for building quantitative models to address unresolved issues in molecular biology. In order to describe the behavior of biological cells adequately, gene regulatory networks (GRNs) are intensively investigated.
Bernhard Steiert +3 more
doaj +1 more source
Toward a Logic of the Organism: A Process Philosophical Consideration
Entropy, 2021 Mathematical models applied in contemporary theoretical and systems biology are based on some implicit ontological assumptions about the nature of organisms.
Spyridon A. Koutroufinis
doaj +1 more source
Parallel implementation of stochastic simulation for large-scale cellular processes [PDF]
, 2005 Experimental and theoretical studies have shown the importance of stochastic processes in genetic regulatory networks and cellular processes. Cellular networks and genetic circuits often involve small numbers of key proteins such as transcriptional ...
Burrage, K., Tian, T.
core +2 more sources