Spatially coordinated collective phosphorylation filters spatiotemporal noises for precise circadian timekeeping

SJ Chae, DW Kim, S Lee, JK Kim - Iscience, 2023 - cell.com
The circadian (∼ 24h) clock is based on a negative-feedback loop centered around the
PERIOD protein (PER), translated in the cytoplasm and then enters the nucleus to repress its …

Wake-sleep cycles are severely disrupted by diseases affecting cytoplasmic homeostasis

S Beesley, DW Kim, M D'Alessandro… - Proceedings of the …, 2020 - National Acad Sciences
The circadian clock is based on a transcriptional feedback loop with an essential time delay
before feedback inhibition. Previous work has shown that PERIOD (PER) proteins generate …

A modular approach for modeling the cell cycle based on functional response curves

J De Boeck, J Rombouts, L Gelens - PLoS computational biology, 2021 - journals.plos.org
Modeling biochemical reactions by means of differential equations often results in systems
with a large number of variables and parameters. As this might complicate the interpretation …

It's about time: Analysing simplifying assumptions for modelling multi-step pathways in systems biology

N Korsbo, H Jönsson - PLoS computational biology, 2020 - journals.plos.org
Thoughtful use of simplifying assumptions is crucial to make systems biology models
tractable while still representative of the underlying biology. A useful simplification can …

Cell cycle oscillations driven by two interlinked bistable switches

P Parra-Rivas, D Ruiz-Reynés… - Molecular Biology of the …, 2023 - Am Soc Cell Biol
Regular transitions between interphase and mitosis during the cell cycle are driven by
changes in the activity of the enzymatic protein complex cyclin B with cyclin-dependent …

Evolution of self-organised division of labour driven by stigmergy in leaf-cutter ants

V Di Pietro, P Govoni, KH Chan, RC Oliveira… - Scientific Reports, 2022 - nature.com
Social insects owe their widespread success to their ability to efficiently coordinate
behaviour to carry out complex tasks. Several leaf-cutter ant species employ an advanced …

The ups and downs of biological oscillators: a comparison of time-delayed negative feedback mechanisms

J Rombouts, S Verplaetse… - Journal of the Royal …, 2023 - royalsocietypublishing.org
Many biochemical oscillators are driven by the periodic rise and fall of protein
concentrations or activities. A negative feedback loop underlies such oscillations. The …

Travelling fronts in time-delayed reaction–diffusion systems

J Rombouts, L Gelens, T Erneux - … Transactions of the …, 2019 - royalsocietypublishing.org
We review a series of key travelling front problems in reaction–diffusion systems with a time-
delayed feedback, appearing in ecology, nonlinear optics and neurobiology. For each …

Handling hysteresis in a referral marketing campaign with self-information. Hints from epidemics

D Lacitignola - Mathematics, 2021 - mdpi.com
In this study we show that concept of backward bifurcation, borrowed from epidemics, can be
fruitfully exploited to shed light on the mechanism underlying the occurrence of hysteresis in …

Synchronizing an oscillatory medium: The speed of pacemaker-generated waves

J Rombouts, L Gelens - Physical Review Research, 2020 - APS
In an oscillatory medium, a region which oscillates faster than its surroundings can act as a
source of outgoing waves. Such pacemaker-generated waves can synchronize the whole …