The spatial organization of transcriptional control

A Hafner, A Boettiger - Nature Reviews Genetics, 2023 - nature.com
In animals, the sequences for controlling gene expression do not concentrate just at the
transcription start site of genes, but are frequently thousands to millions of base pairs distal …

[HTML][HTML] The era of 3D and spatial genomics

BAM Bouwman, N Crosetto, M Bienko - Trends in genetics, 2022 - cell.com
Over a decade ago the advent of high-throughput chromosome conformation capture (Hi-C)
sparked a new era of 3D genomics. Since then the number of methods for mapping the 3D …

HLTF disrupts Cas9-DNA post-cleavage complexes to allow DNA break processing

G Reginato, MR Dello Stritto, Y Wang, J Hao… - Nature …, 2024 - nature.com
The outcome of CRISPR-Cas-mediated genome modifications is dependent on DNA double-
strand break (DSB) processing and repair pathway choice. Homology-directed repair (HDR) …

Dynamics of RNA localization to nuclear speckles are connected to splicing efficiency

J Wu, Y Xiao, Y Liu, L Wen, C Jin, S Liu, S Paul… - Science …, 2024 - science.org
Nuclear speckles are nuclear membraneless organelles in higher eukaryotic cells playing a
vital role in gene expression. Using an in situ reverse transcription–based sequencing …

Imaging the unimaginable: leveraging signal generation of CRISPR-Cas for sensitive genome imaging

C Van Tricht, T Voet, J Lammertyn, D Spasic - Trends in Biotechnology, 2023 - cell.com
Fluorescence in situ hybridization (FISH) is the gold standard for visualizing genomic DNA in
fixed cells and tissues, but it is incompatible with live-cell imaging, and its combination with …

Next generation single-molecule techniques: Imaging, labeling, and manipulation in vitro and in cellulo

T Ha, C Kaiser, S Myong, B Wu, J Xiao - Molecular cell, 2022 - cell.com
Owing to their unique abilities to manipulate, label, and image individual molecules in vitro
and in cellulo, single-molecule techniques provide previously unattainable access to …

CPA-Cas12a-based lateral flow strip for portable assay of Methicillin-resistant Staphylococcus aureus in clinical sample

J Wu, Y Huang, X Ding, L Kang, X Wang, D Li… - Journal of …, 2023 - Springer
The rapid and accurate identification of methicillin-resistant Staphylococcus aureus at an
early antibiotic therapy stage would be benefit to disease diagnosis and antibiotic selection …

RASER-FISH: non-denaturing fluorescence in situ hybridization for preservation of three-dimensional interphase chromatin structure

JM Brown, S De Ornellas, E Parisi, L Schermelleh… - Nature …, 2022 - nature.com
DNA fluorescence in situ hybridization (FISH) has been a central technique in advancing our
understanding of how chromatin is organized within the nucleus. With the increasing …

Diagnostic performance of fluorescence in situ hybridization (FISH) in upper tract urothelial carcinoma (UTUC): a systematic review and meta-analysis

AH Aalami, F Aalami - International journal of clinical oncology, 2022 - Springer
Background Fluorescence in situ hybridization (FISH) is a technique that uses fluorescently
labeled DNA probes. Many studies have evaluated the ROC curve (sensitivity and …

Single-Macromolecule Studies of Eukaryotic Genomic Maintenance

S Rudnizky, PJ Murray, CH Wolfe… - Annual Review of …, 2024 - annualreviews.org
Genomes are self-organized and self-maintained as long, complex macromolecules of
chromatin. The inherent heterogeneity, stochasticity, phase separation, and chromatin …