Physicochemical properties of cells and their effects on intrinsically disordered proteins (IDPs)

FX Theillet, A Binolfi, T Frembgen-Kesner… - Chemical …, 2014 - ACS Publications
It has long been axiomatic that a protein's structure determines its function. Intrinsically
disordered proteins (IDPs) and disordered protein regions (IDRs) defy this structure …

[HTML][HTML] The phosphorylation switch that regulates ticking of the circadian clock

R Narasimamurthy, DM Virshup - Molecular cell, 2021 - cell.com
Summary In our 24/7 well-lit world, it's easy to skip or delay sleep to work, study, and play.
However, our circadian rhythms are not easily fooled; the consequences of jet lag and shift …

Regulation of plant stem cell quiescence by a brassinosteroid signaling module

J Vilarrasa-Blasi, MP González-García, D Frigola… - Developmental cell, 2014 - cell.com
The quiescent center (QC) maintains the activity of the surrounding stem cells within the root
stem cell niche, yet specific molecular players sustaining the low rate of QC cell division …

Bottom-up construction of in vitro switchable memories

A Padirac, T Fujii, Y Rondelez - Proceedings of the …, 2012 - National Acad Sciences
Reaction networks displaying bistability provide a chemical mechanism for long-term
memory storage in cells, as exemplified by many epigenetic switches. These biological …

Ultrasensitive response motifs: basic amplifiers in molecular signalling networks

Q Zhang, S Bhattacharya, ME Andersen - Open biology, 2013 - royalsocietypublishing.org
Multi-component signal transduction pathways and gene regulatory circuits underpin
integrated cellular responses to perturbations. A recurring set of network motifs serve as the …

Atoms of multistationarity in chemical reaction networks

B Joshi, A Shiu - Journal of Mathematical Chemistry, 2013 - Springer
Chemical reaction systems are dynamical systems that arise in chemical engineering and
systems biology. In this work, we consider the question of whether the minimal (in a precise …

A bistable genetic switch based on designable DNA-binding domains

T Lebar, U Bezeljak, A Golob, M Jerala… - Nature …, 2014 - nature.com
Bistable switches are fundamental regulatory elements of complex systems, ranging from
electronics to living cells. Designed genetic toggle switches have been constructed from …

A survey of methods for deciding whether a reaction network is multistationary

B Joshi, A Shiu - Mathematical Modelling of Natural Phenomena, 2015 - mmnp-journal.org
Which reaction networks, when taken with mass-action kinetics, have the capacity for
multiple steady states? There is no complete answer to this question, but over the last 40 …

Stability and multiattractor dynamics of a toggle switch based on a two-stage model of stochastic gene expression

M Strasser, FJ Theis, C Marr - Biophysical journal, 2012 - cell.com
A toggle switch consists of two genes that mutually repress each other. This regulatory motif
is active during cell differentiation and is thought to act as a memory device, being able to …

Chemical reaction network approaches to biochemical systems theory

CPP Arceo, EC Jose, A Marin-Sanguino… - Mathematical …, 2015 - Elsevier
This paper provides a framework to represent a Biochemical Systems Theory (BST) model
(in either GMA or S-system form) as a chemical reaction network with power law kinetics …