A matter of time: Using dynamics and theory to uncover mechanisms of transcriptional bursting
Eukaryotic transcription generally occurs in bursts of activity lasting minutes to hours;
however, state-of-the-art measurements have revealed that many of the molecular …
however, state-of-the-art measurements have revealed that many of the molecular …
Gene regulation in and out of equilibrium
F Wong, J Gunawardena - Annual review of biophysics, 2020 - annualreviews.org
Determining whether and how a gene is transcribed are two of the central processes of life.
The conceptual basis for understanding such gene regulation arose from pioneering …
The conceptual basis for understanding such gene regulation arose from pioneering …
Size limits the sensitivity of kinetic schemes
JA Owen, JM Horowitz - Nature Communications, 2023 - nature.com
Living things benefit from exquisite molecular sensitivity in many of their key processes,
including DNA replication, transcription and translation, chemical sensing, and …
including DNA replication, transcription and translation, chemical sensing, and …
Multimodal transcriptional control of pattern formation in embryonic development
Predicting how interactions between transcription factors and regulatory DNA sequence
dictate rates of transcription and, ultimately, drive developmental outcomes remains an open …
dictate rates of transcription and, ultimately, drive developmental outcomes remains an open …
Topologically constrained fluctuations and thermodynamics regulate nonequilibrium response
G Fernandes Martins, JM Horowitz - Physical Review E, 2023 - APS
The limits on a system's response to external perturbations inform our understanding of how
physical properties can be shaped by microscopic characteristics. Here, we derive …
physical properties can be shaped by microscopic characteristics. Here, we derive …
Allosteric conformational ensembles have unlimited capacity for integrating information
JW Biddle, R Martinez-Corral, F Wong, J Gunawardena - Elife, 2021 - elifesciences.org
Integration of binding information by macromolecular entities is fundamental to cellular
functionality. Recent work has shown that such integration cannot be explained by pairwise …
functionality. Recent work has shown that such integration cannot be explained by pairwise …
Precision of tissue patterning is controlled by dynamical properties of gene regulatory networks
K Exelby, E Herrera-Delgado, LG Perez… - …, 2021 - journals.biologists.com
During development, gene regulatory networks allocate cell fates by partitioning tissues into
spatially organised domains of gene expression. How the sharp boundaries that delineate …
spatially organised domains of gene expression. How the sharp boundaries that delineate …
Minimal synthetic enhancers reveal control of the probability of transcriptional engagement and its timing by a morphogen gradient
How enhancers interpret morphogen gradients to generate gene expression patterns is a
central question in developmental biology. Recent studies have proposed that enhancers …
central question in developmental biology. Recent studies have proposed that enhancers …
A matter of time: Formation and interpretation of the Bicoid morphogen gradient
A Huang, TE Saunders - Current topics in developmental biology, 2020 - Elsevier
Spatially distributed signaling molecules, known as morphogens, provide spatial information
during development. A host of different morphogens have now been identified, from …
during development. A host of different morphogens have now been identified, from …
A mechanism for hunchback promoters to readout morphogenetic positional information in less than a minute
J Desponds, M Vergassola, AM Walczak - Elife, 2020 - elifesciences.org
Cell fate decisions in the fly embryo are rapid: hunchback genes decide in minutes whether
nuclei follow the anterior/posterior developmental blueprint by reading out positional …
nuclei follow the anterior/posterior developmental blueprint by reading out positional …