What are memories made of? How Polycomb and Trithorax proteins mediate epigenetic memory

PA Steffen, L Ringrose - Nature reviews molecular cell biology, 2014 - nature.com
In any biological system with memory, the state of the system depends on its history.
Epigenetic memory maintains gene expression states through cell generations without a …

Epithelial/mesenchymal plasticity: how have quantitative mathematical models helped improve our understanding?

MK Jolly, SC Tripathi, JA Somarelli… - Molecular …, 2017 - Wiley Online Library
Phenotypic plasticity, the ability of cells to reversibly alter their phenotypes in response to
signals, presents a significant clinical challenge to treating solid tumors. Tumor cells utilize …

[HTML][HTML] Perinuclear anchoring of H3K9-methylated chromatin stabilizes induced cell fate in C. elegans embryos

A Gonzalez-Sandoval, BD Towbin, V Kalck… - Cell, 2015 - cell.com
Interphase chromatin is organized in distinct nuclear sub-compartments, reflecting its degree
of compaction and transcriptional status. In Caenorhabditis elegans embryos, H3K9 …

Multivalency governs HP1α association dynamics with the silent chromatin state

S Kilic, AL Bachmann, LC Bryan, B Fierz - Nature communications, 2015 - nature.com
Multivalent interactions between effector proteins and histone post-translational
modifications are an elementary mechanism of dynamic chromatin signalling. Here we …

Theoretical analysis of Polycomb-Trithorax systems predicts that poised chromatin is bistable and not bivalent

K Sneppen, L Ringrose - Nature communications, 2019 - nature.com
Abstract Polycomb (PcG) and Trithorax (TrxG) group proteins give stable epigenetic memory
of silent and active gene expression states, but also allow poised states in pluripotent cells …

Vernalizing cold is registered digitally at FLC

A Angel, J Song, H Yang, JI Questa… - Proceedings of the …, 2015 - National Acad Sciences
A fundamental property of many organisms is an ability to sense, evaluate, and respond to
environmental signals. In some situations, generation of an appropriate response requires …

Statistical mechanics model for the dynamics of collective epigenetic histone modification

H Zhang, XJ Tian, A Mukhopadhyay, KS Kim, J Xing - Physical review letters, 2014 - APS
Epigenetic histone modifications play an important role in the maintenance of different cell
phenotypes. The exact molecular mechanism for inheritance of the modification patterns …

The ATAD2 bromodomain binds different acetylation marks on the histone H4 in similar fuzzy complexes

C Langini, A Caflisch, A Vitalis - Journal of Biological Chemistry, 2017 - ASBMB
Bromodomains are protein modules adopting conserved helix bundle folds. Some
bromodomain-containing proteins, such as ATPase family AAA domain-containing protein 2 …

Noncoding RNAs in polycomb and trithorax regulation: a quantitative perspective

L Ringrose - Annual Review of Genetics, 2017 - annualreviews.org
The question of how noncoding RNAs are involved in Polycomb group (PcG) and Trithorax
group (TrxG) regulation has been on an extraordinary journey over the last three decades …

Quantitative in vivo analysis of chromatin binding of Polycomb and Trithorax group proteins reveals retention of ASH1 on mitotic chromatin

PA Steffen, JP Fonseca, C Gänger… - Nucleic acids …, 2013 - academic.oup.com
Abstract The Polycomb (PcG) and Trithorax (TrxG) group proteins work antagonistically on
several hundred developmentally important target genes, giving stable mitotic memory, but …