Sensitivity analysis approaches applied to systems biology models
Z Zi - IET systems biology, 2011 - IET
With the rising application of systems biology, sensitivity analysis methods have been widely
applied to study the biological systems, including metabolic networks, signalling pathways …
applied to study the biological systems, including metabolic networks, signalling pathways …
Identifiability analysis for stochastic differential equation models in systems biology
Mathematical models are routinely calibrated to experimental data, with goals ranging from
building predictive models to quantifying parameters that cannot be measured. Whether or …
building predictive models to quantifying parameters that cannot be measured. Whether or …
Mechanistic links between cellular trade-offs, gene expression, and growth
Intracellular processes rarely work in isolation but continually interact with the rest of the cell.
In microbes, for example, we now know that gene expression across the whole genome …
In microbes, for example, we now know that gene expression across the whole genome …
A framework for parameter estimation and model selection from experimental data in systems biology using approximate Bayesian computation
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 …
sciences, researchers need reliable tools to calibrate models against ever more complex …
Size-dependent increase in RNA polymerase II initiation rates mediates gene expression scaling with cell size
XM Sun, A Bowman, M Priestman, F Bertaux… - Current Biology, 2020 - cell.com
Cell size varies during the cell cycle and in response to external stimuli. This requires the
tight coordination, or" scaling," of mRNA and protein quantities with the cell volume in order …
tight coordination, or" scaling," of mRNA and protein quantities with the cell volume in order …
Maximizing the information content of experiments in systems biology
Our understanding of most biological systems is in its infancy. Learning their structure and
intricacies is fraught with challenges, and often side-stepped in favour of studying the …
intricacies is fraught with challenges, and often side-stepped in favour of studying the …
On optimality of kernels for approximate Bayesian computation using sequential Monte Carlo
Approximate Bayesian computation (ABC) has gained popularity over the past few years for
the analysis of complex models arising in population genetics, epidemiology and system …
the analysis of complex models arising in population genetics, epidemiology and system …
Pyomo.DOE: An open‐source package for model‐based design of experiments in Python
J Wang, AW Dowling - AIChE Journal, 2022 - Wiley Online Library
Predictive mathematical models are a cornerstone of science and engineering. Yet
selecting, calibrating, and validating said science‐based models often remains an art in …
selecting, calibrating, and validating said science‐based models often remains an art in …
How to deal with parameters for whole-cell modelling
AC Babtie, MPH Stumpf - Journal of The Royal Society …, 2017 - royalsocietypublishing.org
Dynamical systems describing whole cells are on the verge of becoming a reality. But as
models of reality, they are only useful if we have realistic parameters for the molecular …
models of reality, they are only useful if we have realistic parameters for the molecular …
Markovian dynamics on complex reaction networks
J Goutsias, G Jenkinson - Physics reports, 2013 - Elsevier
Complex networks, comprised of individual elements that interact with each other through
reaction channels, are ubiquitous across many scientific and engineering disciplines …
reaction channels, are ubiquitous across many scientific and engineering disciplines …