Deconstructing the core dynamics from a complex time-lagged regulatory biological circuit

O Eriksson, B Brinne, Y Zhou, J Björkegren, J Tegnér - IET systems biology, 2009 - IET
Complex regulatory dynamics is ubiquitous in molecular networks composed of genes and
proteins. Recent progress in computational biology and its application to molecular data …

Controllability and its applications to biological networks

L Wu, M Li, JX Wang, FX Wu - Journal of Computer Science and …, 2019 - Springer
Biological elements usually exert their functions through interactions with others to form
various types of biological networks. The ability of controlling the dynamics of biological …

Getting your loops straight

LB Ray - Science, 2008 - science.org
Complicated biochemical signaling pathways regulate the function of living cells. Such
regulatory networks often have “downstream” components that provide input to components …

Implicit methods for qualitative modeling of gene regulatory networks

A Garg, K Mohanram, G De Micheli… - Gene regulatory networks …, 2012 - Springer
Advancements in high-throughput technologies to measure increasingly complex biological
phenomena at the genomic level are rapidly changing the face of biological research from …

Systems biology: from physiology to gene regulation

M Khammash, H El-Samad - IEEE Control Systems Magazine, 2004 - ieeexplore.ieee.org
The discovery of DNA and its essential role in cellular function has revolutionized the
science of biology. Rapid progress in biology has led to new and exciting discoveries that …

Dynamical methods for target control of biological networks

T Parmer, F Radicchi - Royal Society Open Science, 2023 - royalsocietypublishing.org
Estimating the influence that individual nodes have on one another in a Boolean network is
essential to predict and control the system's dynamical behaviour, for example, detecting key …

A system-level mathematical description of metabolic regulation combining aspects of elementary mode analysis with cybernetic control laws

JD Young - 2005 - search.proquest.com
Cybernetic modeling strives to uncover the in-built regulatory programs of biological systems
and leverage them to develop concise mathematical representations of cellular phenomena …

Challenges at the interface of control engineering and synthetic biology

H Steel, G Lillacci, M Khammash… - 2017 IEEE 56th …, 2017 - ieeexplore.ieee.org
Synthetic biology is a rapidly expanding field at the interface of the engineering and
biological sciences which aims to apply rational design principles in biological contexts …

The effective graph reveals redundancy, canalization, and control pathways in biochemical regulation and signaling

AJ Gates, R Brattig Correia, X Wang… - Proceedings of the …, 2021 - National Acad Sciences
The ability to map causal interactions underlying genetic control and cellular signaling has
led to increasingly accurate models of the complex biochemical networks that regulate …

[PDF][PDF] Metabolic control analysis in a nutshell

JHS Hofmeyr - Proceedings of the 2nd International conference on …, 2001 - academia.edu
Metabolic control analysis is a powerful quantitative framework for understanding the
relationship between the steady-state properties of a (bio) chemical reaction network as a …