The sequence-dependent DNA deformability at the basepair step level was investigated
using large-scale atomic resolution molecular dynamics simulation of two 18-bp DNA …

The nanometer scale is a special place where all sciences meet and develop a particularly
strong interdisciplinarity. While biology is a source of inspiration for nanoscientists, chemistry …

Motivation The computational search for promoters in prokaryotes remains an attractive
problem in bioinformatics. Despite the attention it has received for many years, the problem …

Nucleosome positioning plays an essential role in cellular processes by modulating
accessibility of DNA to proteins. Here, using only sequence-dependent DNA flexibility and …

This paper reports a study of the sequence-dependent DNA curvature and flexibility based
on scanning force microscopy (SFM) images. We used a palindromic dimer of a 1878-bp …

The article reviews some recent developments in studying DNA sequence‐dependent
deformability, with emphasis on computer modeling. After a brief outline of available …

Bacterial promoters play a crucial role in gene expression by serving as docking sites for the
transcription initiation machinery. However, accurately identifying promoter regions in …

Interactions between distantly separated DNA regions mediated by specialized proteins
lead to the formation of synaptic protein− DNA complexes. This is a ubiquitous phenomenon …

Since its pioneering description in 1982 by Seeman,[1] DNA-based nanotechnology has
undergone a rapid development, such that the self-assembly of synthetic oligonucleotides is …

The interactive chromatin modeling web server (ICM Web) is an interactive tool that allows
users to rapidly assess nucleosome stability and fold sequences of DNA into putative …