Sniffers, buzzers, toggles and blinkers: dynamics of regulatory and signaling pathways in the cell
The physiological responses of cells to external and internal stimuli are governed by genes
and proteins interacting in complex networks whose dynamical properties are impossible to …
and proteins interacting in complex networks whose dynamical properties are impossible to …
Recent developments in parameter estimation and structure identification of biochemical and genomic systems
IC Chou, EO Voit - Mathematical biosciences, 2009 - Elsevier
The organization, regulation and dynamical responses of biological systems are in many
cases too complex to allow intuitive predictions and require the support of mathematical …
cases too complex to allow intuitive predictions and require the support of mathematical …
The coherent feedforward loop serves as a sign-sensitive delay element in transcription networks
S Mangan, A Zaslaver, U Alon - Journal of molecular biology, 2003 - Elsevier
Recent analysis of the structure of transcription regulation networks revealed several
“network motifs”: regulatory circuit patterns that occur much more frequently than in …
“network motifs”: regulatory circuit patterns that occur much more frequently than in …
Assigning numbers to the arrows: parameterizing a gene regulation network by using accurate expression kinetics
M Ronen, R Rosenberg… - Proceedings of the …, 2002 - National Acad Sciences
A basic challenge in systems biology is to understand the dynamical behavior of gene
regulation networks. Current approaches aim at determining the network structure based on …
regulation networks. Current approaches aim at determining the network structure based on …
Emergent bistability by a growth-modulating positive feedback circuit
Synthetic gene circuits are often engineered by considering the host cell as an
invariable'chassis'. Circuit activation, however, may modulate host physiology, which in turn …
invariable'chassis'. Circuit activation, however, may modulate host physiology, which in turn …
Inference of gene regulatory networks and compound mode of action from time course gene expression profiles
Motivation: Time series expression experiments are an increasingly popular method for
studying a wide range of biological systems. Here we developed an algorithm that can infer …
studying a wide range of biological systems. Here we developed an algorithm that can infer …
[HTML][HTML] Dynamic properties of network motifs contribute to biological network organization
Biological networks, such as those describing gene regulation, signal transduction, and
neural synapses, are representations of large-scale dynamic systems. Discovery of …
neural synapses, are representations of large-scale dynamic systems. Discovery of …
Biochemical systems theory: a review
EO Voit - International Scholarly Research Notices, 2013 - Wiley Online Library
Biochemical systems theory (BST) is the foundation for a set of analytical andmodeling tools
that facilitate the analysis of dynamic biological systems. This paper depicts major …
that facilitate the analysis of dynamic biological systems. This paper depicts major …
[HTML][HTML] Architecture-dependent noise discriminates functionally analogous differentiation circuits
Gene regulatory circuits with different architectures (patterns of regulatory interactions) can
generate similar dynamics. This raises the question of why a particular circuit architecture is …
generate similar dynamics. This raises the question of why a particular circuit architecture is …
Metabolomics applications of FT‐ICR mass spectrometry
SC Brown, G Kruppa, JL Dasseux - Mass spectrometry reviews, 2005 - Wiley Online Library
Metabolomics, also known as Metabolic Profiling, is an emerging discipline under the
umbrella concept of systems biology. The goal of metabolomics is to know and understand …
umbrella concept of systems biology. The goal of metabolomics is to know and understand …