[HTML][HTML] The self-organizing genome: principles of genome architecture and function

T Misteli - Cell, 2020 - cell.com
Genomes have complex three-dimensional architectures. The recent convergence of
genetic, biochemical, biophysical, and cell biological methods has uncovered several …

CRISPR/Cas9 in genome editing and beyond

H Wang, M La Russa, LS Qi - Annual review of biochemistry, 2016 - annualreviews.org
The Cas9 protein (CRISPR-associated protein 9), derived from type II CRISPR (clustered
regularly interspaced short palindromic repeats) bacterial immune systems, is emerging as a …

Condensed chromatin behaves like a solid on the mesoscale in vitro and in living cells

H Strickfaden, TO Tolsma, A Sharma, DA Underhill… - Cell, 2020 - cell.com
The association of nuclear DNA with histones to form chromatin is essential for temporal and
spatial control of eukaryotic genomes. In this study, we examined the physical state of …

HP1 proteins compact DNA into mechanically and positionally stable phase separated domains

MM Keenen, D Brown, LD Brennan, R Renger, H Khoo… - elife, 2021 - elifesciences.org
In mammals, HP1-mediated heterochromatin forms positionally and mechanically stable
genomic domains even though the component HP1 paralogs, HP1α, HP1β, and HP1γ …

Toward quantitative bio-sensing with nitrogen–vacancy center in diamond

T Zhang, G Pramanik, K Zhang, M Gulka, L Wang… - ACS …, 2021 - ACS Publications
The long-dreamed-of capability of monitoring the molecular machinery in living systems has
not been realized yet, mainly due to the technical limitations of current sensing technologies …

Live-cell imaging reveals enhancer-dependent Sox2 transcription in the absence of enhancer proximity

JM Alexander, J Guan, B Li, L Maliskova, M Song… - elife, 2019 - elifesciences.org
Enhancers are important regulatory elements that can control gene activity across vast
genetic distances. However, the underlying nature of this regulation remains obscured …

Chromatin and nucleosome dynamics in DNA damage and repair

MH Hauer, SM Gasser - Genes & development, 2017 - genesdev.cshlp.org
Chromatin is organized into higher-order structures that form subcompartments in
interphase nuclei. Different categories of specialized enzymes act on chromatin and …

Transcription-coupled changes in nuclear mobility of mammalian cis-regulatory elements

B Gu, T Swigut, A Spencley, MR Bauer, M Chung… - Science, 2018 - science.org
To achieve guide RNA (gRNA) multiplexing and an efficient delivery of tens of distinct
gRNAs into single cells, we developed a molecular assembly strategy termed chimeric array …

Enhancer selectivity in space and time: from enhancer–promoter interactions to promoter activation

JH Yang, AS Hansen - Nature Reviews Molecular Cell Biology, 2024 - nature.com
The primary regulators of metazoan gene expression are enhancers, originally functionally
defined as DNA sequences that can activate transcription at promoters in an orientation …

[HTML][HTML] Extensive heterogeneity and intrinsic variation in spatial genome organization

EH Finn, G Pegoraro, HB Brandão, AL Valton… - Cell, 2019 - cell.com
Several general principles of global 3D genome organization have recently been
established, including non-random positioning of chromosomes and genes in the cell …