[HTML][HTML] Diverse mechanisms of centromere specification

BG Mellone, D Fachinetti - Current Biology, 2021 - cell.com
The centromere performs a universally conserved function, to accurately partition genetic
information upon cell division. Yet, centromeres are among the most rapidly evolving …

Molecular dynamics simulations of DNA–DNA and DNA–protein interactions

J Yoo, D Winogradoff, A Aksimentiev - Current Opinion in Structural Biology, 2020 - Elsevier
Highlights•Standard force fields prescribe overly attractive DNA-DNA and DNA-protein
interactions.•Recently improved force fields enable simulations that reproduce and predict …

[HTML][HTML] CENP-B-mediated DNA loops regulate activity and stability of human centromeres

F Chardon, A Japaridze, H Witt, L Velikovsky… - Molecular cell, 2022 - cell.com
Chromosome inheritance depends on centromeres, epigenetically specified regions of
chromosomes. While conventional human centromeres are known to be built of long tandem …

[HTML][HTML] Multiscale modeling of genome organization with maximum entropy optimization

X Lin, Y Qi, AP Latham, B Zhang - The Journal of chemical physics, 2021 - pubs.aip.org
ABSTRACT Three-dimensional (3D) organization of the human genome plays an essential
role in all DNA-templated processes, including gene transcription, gene regulation, and …

The force is strong with this epigenome: chromatin structure and mechanobiology

CR Hsia, DP Melters, Y Dalal - Journal of Molecular Biology, 2023 - Elsevier
All life forms sense and respond to mechanical stimuli. Throughout evolution, organisms
develop diverse mechanosensing and mechanotransduction pathways, leading to fast and …

DNA damage alters nuclear mechanics through chromatin reorganization

Á Dos Santos, AW Cook, RE Gough… - Nucleic acids …, 2021 - academic.oup.com
DNA double-strand breaks drive genomic instability. However, it remains unknown how
these processes may affect the biomechanical properties of the nucleus and what role …

DNA mechanics and its biological impact

A Basu, DG Bobrovnikov, T Ha - Journal of molecular biology, 2021 - Elsevier
Almost all nucleoprotein interactions and DNA manipulation events involve mechanical
deformations of DNA. Extraordinary progresses in single-molecule, structural, and …

Extracellular matrix cues regulate mechanosensing and mechanotransduction of cancer cells

CT Mierke - Cells, 2024 - mdpi.com
Extracellular biophysical properties have particular implications for a wide spectrum of
cellular behaviors and functions, including growth, motility, differentiation, apoptosis, gene …

Molecular dynamics simulations of nucleosomes are coming of age

AS Fedulova, GA Armeev… - Wiley …, 2024 - Wiley Online Library
Understanding the function of eukaryotic genomes, including the human genome, is
undoubtedly one of the major scientific challenges of the 21st century. The cornerstone of …

Vertebrate centromeres in mitosis are functionally bipartite structures stabilized by cohesin

C Sacristan, K Samejima, LA Ruiz, M Deb… - Cell, 2024 - cell.com
Centromeres are scaffolds for the assembly of kinetochores that ensure chromosome
segregation during cell division. How vertebrate centromeres obtain a three-dimensional …