Elucidation of how the Mir-23-27-24 cluster regulates development and aging

XL Yap, JA Chen - Experimental & Molecular Medicine, 2024 - nature.com
MicroRNAs (miRNAs) are pivotal regulators of gene expression and are involved in
biological processes spanning from early developmental stages to the intricate process of …

Holimap: an accurate and efficient method for solving stochastic gene network dynamics

C Jia, R Grima - Nature Communications, 2024 - nature.com
Gene-gene interactions are crucial to the control of sub-cellular processes but our
understanding of their stochastic dynamics is hindered by the lack of simulation methods …

Genome-wide inference reveals that feedback regulations constrain promoter-dependent transcriptional burst kinetics

S Luo, Z Wang, Z Zhang, T Zhou… - Nucleic Acids …, 2023 - academic.oup.com
Gene expression in mammalian cells is highly variable and episodic, resulting in a series of
discontinuous bursts of mRNAs. A challenge is to understand how static promoter …

The art of modeling gene regulatory circuits

M Gómez-Schiavon, I Montejano-Montelongo… - npj Systems Biology …, 2024 - nature.com
The amazing complexity of gene regulatory circuits, and biological systems in general,
makes mathematical modeling an essential tool to frame and develop our understanding of …

Widespread biochemical reaction networks enable Turing patterns without imposed feedback

S Paul, J Adetunji, T Hong - Nature Communications, 2024 - nature.com
Understanding self-organized pattern formation is fundamental to biology. In 1952, Alan
Turing proposed a pattern-enabling mechanism in reaction-diffusion systems containing …

Epigenetic memory acquired during long-term EMT induction governs the recovery to the epithelial state

P Jain, S Corbo, K Mohammad… - Journal of the …, 2023 - royalsocietypublishing.org
Epithelial–mesenchymal transition (EMT) and its reverse mesenchymal–epithelial transition
(MET) are critical during embryonic development, wound healing and cancer metastasis …

A robust ultrasensitive transcriptional switch in noisy cellular environments

EM Jeong, JK Kim - npj Systems Biology and Applications, 2024 - nature.com
Ultrasensitive transcriptional switches enable sharp transitions between transcriptional on
and off states and are essential for cells to respond to environmental cues with high fidelity …

Involvement of epithelial–mesenchymal transition genes in small cell lung cancer phenotypic plasticity

SM Groves, N Panchy, DR Tyson, LA Harris… - Cancers, 2023 - mdpi.com
Simple Summary Small cell lung cancer (SCLC) is an aggressive cancer that is difficult to
treat. There are at least five subtypes of SCLC cells, defined by gene expression signatures …

Comprehensive Parameter Space Mapping of Cell Cycle Dynamics under Network Perturbations

Z Li, S Wang, M Sun, M Jin, D Khain… - ACS Synthetic …, 2024 - ACS Publications
Studies of quantitative systems and synthetic biology have extensively utilized models to
interpret data, make predictions, and guide experimental designs. However, models often …

An integrative phenotype-structured partial differential equation model for the population dynamics of epithelial-mesenchymal transition

J Guilberteau, P Jain, MK Jolly, NP Duteil… - arXiv preprint arXiv …, 2023 - arxiv.org
Phenotypic heterogeneity along the epithelial-mesenchymal (EM) axis contributes to cancer
metastasis and drug resistance. Recent experimental efforts have collated detailed time …