Ten principles of heterochromatin formation and function
Heterochromatin is a key architectural feature of eukaryotic chromosomes, which endows
particular genomic domains with specific functional properties. The capacity of …
particular genomic domains with specific functional properties. The capacity of …
Role of H3K9me3 heterochromatin in cell identity establishment and maintenance
Compacted, transcriptionally repressed chromatin, referred to as heterochromatin,
represents a major fraction of the higher eukaryotic genome and exerts pivotal functions of …
represents a major fraction of the higher eukaryotic genome and exerts pivotal functions of …
Design principles of 3D epigenetic memory systems
Cells remember their identities, in part, by using epigenetic marks—chemical modifications
placed along the genome. How can mark patterns remain stable over cell generations …
placed along the genome. How can mark patterns remain stable over cell generations …
[HTML][HTML] Multiscale modeling of genome organization with maximum entropy optimization
ABSTRACT Three-dimensional (3D) organization of the human genome plays an essential
role in all DNA-templated processes, including gene transcription, gene regulation, and …
role in all DNA-templated processes, including gene transcription, gene regulation, and …
DNA sequence-dependent epigenetic inheritance of gene silencing and histone H3K9 methylation
X Wang, D Moazed - Science, 2017 - science.org
Epigenetic inheritance mechanisms play fundamental roles in maintaining cellular memory
of gene expression states. In fission yeast, histone H3 lysine 9 (H3K9) is methylated …
of gene expression states. In fission yeast, histone H3 lysine 9 (H3K9) is methylated …
4D epigenomics: deciphering the coupling between genome folding and epigenomic regulation with biophysical modeling
Recent experimental observations suggest a strong coupling between the 3D nuclear
chromosome organization and epigenomics. However, the mechanistic and functional …
chromosome organization and epigenomics. However, the mechanistic and functional …
Theoretical analysis of Polycomb-Trithorax systems predicts that poised chromatin is bistable and not bivalent
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 …
of silent and active gene expression states, but also allow poised states in pluripotent cells …
Single-molecule and in silico dissection of the interaction between Polycomb repressive complex 2 and chromatin
Polycomb repressive complex 2 (PRC2) installs and spreads repressive histone methylation
marks on eukaryotic chromosomes. Because of the key roles that PRC2 plays in …
marks on eukaryotic chromosomes. Because of the key roles that PRC2 plays in …
Physical modeling of the heritability and maintenance of epigenetic modifications
SH Sandholtz, Q MacPherson… - Proceedings of the …, 2020 - National Acad Sciences
We develop a predictive theoretical model of the physical mechanisms that govern the
heritability and maintenance of epigenetic modifications. This model focuses on a particular …
heritability and maintenance of epigenetic modifications. This model focuses on a particular …
Dynamic spreading of chromatin-mediated gene silencing and reactivation between neighboring genes in single cells
In mammalian cells genes that are in close proximity can be transcriptionally coupled:
silencing or activating one gene can affect its neighbors. Understanding these dynamics is …
silencing or activating one gene can affect its neighbors. Understanding these dynamics is …