Sloppiness, robustness, and evolvability in systems biology

BC Daniels, YJ Chen, JP Sethna… - Current opinion in …, 2008 - Elsevier
The functioning of many biochemical networks is often robust—remarkably stable under
changes in external conditions and internal reaction parameters. Much recent work on …

Systems biology—an engineering perspective

A Kremling, J Saez-Rodriguez - Journal of biotechnology, 2007 - Elsevier
The interdisciplinary field of systems biology has evolved rapidly over the last years.
Different disciplines have aided the development of both its experimental and theoretical …

Bistability and oscillations in the Huang-Ferrell model of MAPK signaling

L Qiao, RB Nachbar, IG Kevrekidis… - PLoS computational …, 2007 - journals.plos.org
Physicochemical models of signaling pathways are characterized by high levels of structural
and parametric uncertainty, reflecting both incomplete knowledge about signal transduction …

[图书][B] Feedback control in systems biology

C Cosentino, D Bates - 2011 - books.google.com
Like engineering systems, biological systems must also operate effectively in the presence
of internal and external uncertainty—such as genetic mutations or temperature changes, for …

Best practices to maximize the use and reuse of quantitative and systems pharmacology models: recommendations from the United Kingdom quantitative and systems …

L Cucurull‐Sanchez, MJ Chappell… - CPT …, 2019 - Wiley Online Library
The lack of standardization in the way that quantitative and systems pharmacology (QSP)
models are developed, tested, and documented hinders their reproducibility, reusability, and …

A statistical approach reveals designs for the most robust stochastic gene oscillators

ML Woods, M Leon, R Perez-Carrasco… - ACS synthetic …, 2016 - ACS Publications
The engineering of transcriptional networks presents many challenges due to the inherent
uncertainty in the system structure, changing cellular context, and stochasticity in the …

Sensitivity analysis and robust experimental design of a signal transduction pathway system

H Yue, M Brown, F He, J Jia… - International Journal of …, 2008 - Wiley Online Library
Experimental design for cellular networks based on sensitivity analysis is studied in this
work. Both optimal and robust experimental design strategies are developed for the IκB‐NF …

Structural analysis in biology: A control-theoretic approach

F Blanchini, G Giordano - Automatica, 2021 - Elsevier
Despite their complexity, biological systems are able to endure huge parameter fluctuations
and survive in the most diverse environmental conditions. Mathematical tools from graph …

Sensitivity measures for oscillating systems: Application to mammalian circadian gene network

SR Taylor, R Gunawan, LR Petzold… - IEEE transactions on …, 2008 - ieeexplore.ieee.org
Vital physiological behaviors exhibited daily by bacteria, plants, and animals are governed
by endogenous oscillators called circadian clocks. The most salient feature of the circadian …

Robustness analysis, prediction, and estimation for uncertain biochemical networks: An overview

S Streif, KKK Kim, P Rumschinski, M Kishida… - Journal of Process …, 2016 - Elsevier
Mathematical models of biochemical reaction networks are important tools in systems
biology and systems medicine, eg, to analyze disease causes or to make predictions for the …