[HTML][HTML] Memorizing environmental signals through feedback and feedforward loops

Y Jiang, N Hao - Current opinion in cell biology, 2021 - Elsevier
Cells in diverse organisms can store the information of previous environmental conditions
for long periods of time. This form of cellular memory adjusts the cell's responses to future …

Systematic inference identifies a major source of heterogeneity in cell signaling dynamics: The rate-limiting step number

DW Kim, H Hong, JK Kim - Science advances, 2022 - science.org
Identifying the sources of cell-to-cell variability in signaling dynamics is essential to
understand drug response variability and develop effective therapeutics. However, it is …

Limited inhibition of multiple nodes in a driver network blocks metastasis

AE Yesilkanal, D Yang, A Valdespino, P Tiwari… - Elife, 2021 - elifesciences.org
Metastasis suppression by high-dose, multi-drug targeting is unsuccessful due to network
heterogeneity and compensatory network activation. Here, we show that targeting driver …

Molecular switch architecture determines response properties of signaling pathways

KR Ghusinga, RD Jones, AM Jones… - Proceedings of the …, 2021 - National Acad Sciences
Many intracellular signaling pathways are composed of molecular switches, proteins that
transition between two states—on and off. Typically, signaling is initiated when an external …

Compound stress response in stomatal closure: a mathematical model of ABA and ethylene interaction in guard cells

M Beguerisse-Dıaz, MC Hernández-Gómez… - BMC systems …, 2012 - Springer
Background Stomata are tiny pores in plant leaves that regulate gas and water exchange
between the plant and its environment. Abscisic acid and ethylene are two well-known …

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 …

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 …

Spatial modeling of the membrane-cytosolic interface in protein kinase signal transduction

W Giese, G Milicic, A Schröder… - PLoS computational …, 2018 - journals.plos.org
The spatial architecture of signaling pathways and the interaction with cell size and
morphology are complex, but little understood. With the advances of single cell imaging and …

Multiscale mobility patterns and the restriction of human movement

DJ Schindler, J Clarke… - Royal Society Open …, 2023 - royalsocietypublishing.org
From the perspective of human mobility, the COVID-19 pandemic constituted a natural
experiment of enormous reach in space and time. Here, we analyse the inherent multiple …

Exact solutions and equi-dosing regimen regions for multi-dose pharmacokinetics models with transit compartments

F Hof, LJ Bridge - Journal of Pharmacokinetics and Pharmacodynamics, 2021 - Springer
Compartmental models which yield linear ordinary differential equations (ODEs) provide
common tools for pharmacokinetics (PK) analysis, with exact solutions for drug levels or …