Self-organised criticality in base-pair breathing in DNA with a defect

Details Self-organised criticality in base-pair breathing in DNA with a defect Self-organised criticality in base-pair breathing in DNA with a defect

2011-04-21

arxiv.org/abs/1104.4201v1

Physics

Biological Physics

18 pages, 8 figures

Scientific paper

We analyse base-pair breathing in a DNA sequence of 12 base-pairs with a defective base at its centre. We use both all-atom molecular dynamics (MD) simulations and a system of stochastic differential equations (SDE). In both cases, Fourier analysis of the trajectories reveals self-organised critical behaviour in the breathing of base-pairs. The Fourier Transforms (FT) of the interbase distances show power-law behaviour with gradients close to -1. The scale-invariant behaviour we have found provides evidence for the view that base-pair breathing corresponds to the nucleation stage of large-scale DNA opening (or 'melting') and that this process is a (second-order) phase transition. Although the random forces in our SDE system were introduced as white noise, FTs of the displacements exhibit pink noise, as do the displacements in the AMBER/MD simulations.

Affiliated with

Also associated with

No associations

Rating

Self-organised criticality in base-pair breathing in DNA with a defect does not yet have a rating. At this time, there are no reviews or comments for this scientific paper.

If you have personal experience with Self-organised criticality in base-pair breathing in DNA with a defect, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Self-organised criticality in base-pair breathing in DNA with a defect will most certainly appreciate the feedback.

Rate now

Comments { 0 }

Profile ID: LFWR-SCP-O-177992