Novel insights into chromosomal conformations in cancer
Exploring gene function is critical for understanding the complexity of life. DNA sequences
and the three-dimensional organization of chromatin (chromosomal interactions) are …
and the three-dimensional organization of chromatin (chromosomal interactions) are …
Chromosomal organization of transcription: in a nutshell
Early studies of transcriptional regulation focused on individual gene promoters defined
specific transcription factors as central agents of genetic control. However, recent genome …
specific transcription factors as central agents of genetic control. However, recent genome …
Ciprofloxacin impairs mitochondrial DNA replication initiation through inhibition of Topoisomerase 2
A Hangas, K Aasumets, NJ Kekäläinen… - Nucleic acids …, 2018 - academic.oup.com
Maintenance of topological homeostasis is vital for gene expression and genome replication
in all organisms. Similar to other circular genomes, also mitochondrial DNA (mtDNA) is …
in all organisms. Similar to other circular genomes, also mitochondrial DNA (mtDNA) is …
Supercoiling-dependent DNA binding: quantitative modeling and applications to bulk and single-molecule experiments
DNA stores our genetic information and is ubiquitous in applications, where it interacts with
binding partners ranging from small molecules to large macromolecular complexes. Binding …
binding partners ranging from small molecules to large macromolecular complexes. Binding …
Nucleoid remodeling during environmental adaptation is regulated by HU-dependent DNA bundling
Bacterial nucleoid remodeling dependent on conserved histone-like protein, HU is one of
the determining factors in global gene regulation. By imaging of near-native, unlabeled E …
the determining factors in global gene regulation. By imaging of near-native, unlabeled E …
Understanding the relative flexibility of RNA and DNA duplexes: stretching and twist-stretch coupling
L Bao, X Zhang, YZ Shi, YY Wu, ZJ Tan - Biophysical journal, 2017 - cell.com
The flexibility of double-stranded (ds) RNA and dsDNA is crucial for their biological
functions. Recent experiments have shown that the flexibility of dsRNA and dsDNA can be …
functions. Recent experiments have shown that the flexibility of dsRNA and dsDNA can be …
Supercoiling and looping promote DNA base accessibility and coordination among distant sites
Thursday, February 25, 2021 221a sequences to superhelical apices. Base pair disruption
allows sharp bending at superhelical apices, which facilitates DNA writhing and, thus …
allows sharp bending at superhelical apices, which facilitates DNA writhing and, thus …
Features of genomic organization in a nucleotide-resolution molecular model of the Escherichia coli chromosome
We describe structural models of the Escherichia coli chromosome in which the positions of
all 4.6 million nucleotides of each DNA strand are resolved. Models consistent with two …
all 4.6 million nucleotides of each DNA strand are resolved. Models consistent with two …
Long-range correlations in the mechanics of small DNA circles under topological stress revealed by multi-scale simulation
T Sutthibutpong, C Matek, C Benham… - Nucleic acids …, 2016 - academic.oup.com
It is well established that gene regulation can be achieved through activator and repressor
proteins that bind to DNA and switch particular genes on or off, and that complex metabolic …
proteins that bind to DNA and switch particular genes on or off, and that complex metabolic …
Multivalent cations reverse the twist-stretch coupling of RNA
XW Qiang, C Zhang, HL Dong, FJ Tian, H Fu… - Physical Review Letters, 2022 - APS
When stretched, both DNA and RNA duplexes change their twist angles through twist-stretch
coupling. The coupling is negative for DNA but positive for RNA, which is not yet completely …
coupling. The coupling is negative for DNA but positive for RNA, which is not yet completely …