Results 11 to 20 of about 1,232,205 (304)
Experimental design and model reduction in systems biology
Quantitative Biology, 2018 BackgroundIn systems biology, the dynamics of biological networks are often modeled with ordinary differential equations (ODEs) that encode interacting components in the systems, resulting in highly complex models. In contrast, the amount of experimentally available data is almost always limited, and insufficient to constrain the parameters.
Jenny Jeong +4 more
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Near-optimal experimental design for model selection in systems biology [PDF]
Bioinformatics, 2013 AbstractMotivation: Biological systems are understood through iterations of modeling and experimentation. Not all experiments, however, are equally valuable for predictive modeling. This study introduces an efficient method for experimental design aimed at selecting dynamical models from data.
Alberto Giovanni Busetto +7 more
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A framework for parameter estimation and model selection from experimental data in systems biology using approximate Bayesian computation [PDF]
Nature Protocols, 2014 As modeling becomes a more widespread practice in the life sciences and biomedical sciences, researchers need reliable tools to calibrate models against ever more complex and detailed data. Here we present an approximate Bayesian computation (ABC) framework and software environment, ABC-SysBio, which is a Python package that runs on Linux and Mac OS X ...
Liepe, Juliane +5 more
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Model Selection in Systems Biology Depends on Experimental Design
PLoS Computational Biology, 2014 Experimental design attempts to maximise the information available for modelling tasks. An optimal experiment allows the inferred models or parameters to be chosen with the highest expected degree of confidence. If the true system is faithfully reproduced by one of the models, the merit of this approach is clear - we simply wish to identify it and the ...
Daniel Silk +4 more
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Computer-Aided Whole-Cell Design: Taking a Holistic Approach by Integrating Synthetic With Systems Biology [PDF]
Frontiers in Bioengineering and Biotechnology, 2020 Computer-aided design (CAD) for synthetic biology promises to accelerate the rational and robust engineering of biological systems. It requires both detailed and quantitative mathematical and experimental models of the processes to (re)design biology ...
Lucia Marucci +23 more
doaj +2 more sources
iScience, 2021 Summary: Insulin's activation of PI3K/Akt signaling, stimulates glucose uptake by enhancing delivery of GLUT4 to the cell surface. Here we examined the origins of intercellular heterogeneity in insulin signaling.
Dougall Norris +10 more
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iScience, 2022 Summary: Pancreatic ductal adenocarcinoma (PDAC) is a major research focus because of its poor therapy response and dismal prognosis. PDAC cells adapt their metabolism to the surrounding environment, often relying on diverse nutrient sources.
Mohammad Mazharul Islam +3 more
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PEtab—Interoperable specification of parameter estimation problems in systems biology [PDF]
PLoS Comput. Biol., 2020 Reproducibility and reusability of the results of data-based modeling studies are essential. Yet, there has been—so far—no broadly supported format for the specification of parameter estimation problems in systems biology.
Leonard Schmiester +57 more
semanticscholar +1 more source
A stochastic model of homeostasis: The roles of noise and nuclear positioning in deciding cell fate
iScience, 2021 Summary: We study a population-based cellular model that starts from a single stem cell that divides stochastically to give rise to either daughter stem cells or differentiated daughter cells.
Amit Jangid +2 more
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iScience, 2023 Summary: Given the importance of gut microbial communities for human health, we may want to ensure their stability in terms of species composition and function.
Shota Shibasaki, Sara Mitri
doaj +1 more source