The oxDNA model of Deoxyribonucleic acid has been applied widely to systems in biology,
biophysics and nanotechnology. It is currently available via two independent open source …

Systemic lupus erythematosus (SLE) is diagnosed and classified by criteria, or by
experience, intuition and traditions, and not by scientifically well-defined etiology (ies) or …

Eukaryotic genome and methylome encode DNA fragments' propensity to form nucleosome
particles. Although the mechanical properties of DNA possibly orchestrate such encoding …

Abstract Structure and deformability of the DNA double helix play a key role in protein and
small ligand binding, in genome regulation via looping, or in nanotechnology applications …

We used all-atom molecular dynamics simulation to investigate the elastic properties of
double-stranded DNA (dsDNA). We focused on the influences of temperature on the stretch …

The simplest model of DNA mechanics describes the double helix as a continuous rod with
twist and bend elasticity. Recent work has discussed the relevance of a little-studied …

We investigate the influence of nonlocal couplings on the torsional and bending elasticities
of DNA. Such couplings have been observed in the past by several simulation studies. Here …

The study and the investigation of structural and dynamical properties of complex systems
have attracted considerable interest among scientists in general and physicists and …

All-atom simulations have become increasingly popular to study conformational and
dynamical properties of nucleic acids as they are accurate and provide high spatial and time …

It is generally believed that DNA nick is an effective way to release stress in supercoiled
DNA, resulting from the twisting motion that individual strands rotate around the axis of the …