DNA dynamics can only be understood by taking into account its complex mechanical
behavior at different length scales. At the micrometer level, the mechanical properties of …

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 introduce MADna, a sequence-dependent coarse-grained model of double-stranded
DNA (dsDNA), where each nucleotide is described by three beads localized at the sugar, at …

Nucleoid-associated proteins (NAPs) are crucial in organizing prokaryotic DNA and
regulating genes. Vital to these activities are complex nucleoprotein structures, however …

The resistance of DNA to stretch, twist and bend is broadly well estimated by experiments
and is important for gene regulation and chromosome packing. However, their sequence …

The classical genetic code maps nucleotide triplets to amino acids. The associated
sequence composition is complex, representing many elaborations during evolution of form …

Biopolymer topology is critical for determining interactions inside cell environments,
exemplified by DNA where its response to mechanical perturbation is as important as …

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 …

Looping of double-stranded DNA molecules with 100–200 base pairs into minicircles,
catenanes, and rotaxanes has been suggested as a potential tool for DNA …

The combination of DNA force spectroscopy and polarization microscopy of fluorescent DNA
intercalator dyes can provide valuable insights into the structure of DNA under tension …