Approximate Bayesian computation in evolution and ecology

MA Beaumont - Annual review of ecology, evolution, and …, 2010 - annualreviews.org
In the past 10years a statistical technique, approximate Bayesian computation (ABC), has
been developed that can be used to infer parameters and choose between models in the …

[HTML][HTML] Kinetic models in industrial biotechnology–improving cell factory performance

J Almquist, M Cvijovic, V Hatzimanikatis, J Nielsen… - Metabolic …, 2014 - Elsevier
An increasing number of industrial bioprocesses capitalize on living cells by using them as
cell factories that convert sugars into chemicals. These processes range from the production …

A framework for parameter estimation and model selection from experimental data in systems biology using approximate Bayesian computation

J Liepe, P Kirk, S Filippi, T Toni, CP Barnes… - Nature protocols, 2014 - nature.com
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 …

Simulation-based model selection for dynamical systems in systems and population biology

T Toni, MPH Stumpf - Bioinformatics, 2010 - academic.oup.com
Motivation: Computer simulations have become an important tool across the biomedical
sciences and beyond. For many important problems several different models or hypotheses …

Reverse engineering and identification in systems biology: strategies, perspectives and challenges

AF Villaverde, JR Banga - Journal of the Royal Society …, 2014 - royalsocietypublishing.org
The interplay of mathematical modelling with experiments is one of the central elements in
systems biology. The aim of reverse engineering is to infer, analyse and understand …

On optimality of kernels for approximate Bayesian computation using sequential Monte Carlo

S Filippi, CP Barnes, J Cornebise… - Statistical applications in …, 2013 - degruyter.com
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 …

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 …

Effective parameterization of PEM fuel cell models—Part I: Sensitivity analysis and parameter identifiability

A Goshtasbi, J Chen, JR Waldecker… - Journal of the …, 2020 - iopscience.iop.org
This two-part series develops a framework for effective parameterization of polymer
electrolyte membrane (PEM) fuel cell models with limited and non-invasive measurements …

Post-GWAS: where next? More samples, more SNPs or more biology?

P Marjoram, A Zubair, SV Nuzhdin - Heredity, 2014 - nature.com
The power of genome-wide association studies (GWAS) rests on several foundations:(i)
there is a significant amount of additive genetic variation,(ii) individual causal …

Performance of objective functions and optimisation procedures for parameter estimation in system biology models

A Degasperi, D Fey, BN Kholodenko - NPJ systems biology and …, 2017 - nature.com
Mathematical modelling of signalling pathways aids experimental investigation in system
and synthetic biology. Ever increasing data availability prompts the development of large …