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Bubble coalescence in breathing DNA: Two vicious walkers in opposite potentials

Novotny, T.; Pedersen, Jonas LU ; Ambjörnsson, T.; Hansen, M. S. and Metzler, R. (2007) In Europhysics Letters 77(4).
Abstract
We investigate the coalescence of two DNA bubbles initially located at weak segments and separated by a more stable barrier region in a designed construct of double-stranded DNA. The characteristic time for bubble coalescence and the corresponding distribution are derived, as well as the distribution of coalescence positions along the barrier. Below the melting temperature, we find a Kramers-type barrier crossing behaviour, while at high temperatures, the bubble corners perform drift-diffusion towards coalescence. The results are obtained by mapping the bubble dynamics on the problem of two vicious walkers in opposite potentials.
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author
organization
publishing date
type
Contribution to journal
publication status
published
subject
in
Europhysics Letters
volume
77
issue
4
publisher
EDP Sciences
external identifiers
  • wos:000245743300025
  • scopus:78951496074
ISSN
0295-5075
DOI
10.1209/0295-5075/77/48001
language
English
LU publication?
yes
id
3e1b6c06-f5fb-4faf-9b74-00cfe054cc76 (old id 764158)
date added to LUP
2007-12-17 16:17:58
date last changed
2017-01-01 05:16:16
@article{3e1b6c06-f5fb-4faf-9b74-00cfe054cc76,
  abstract     = {We investigate the coalescence of two DNA bubbles initially located at weak segments and separated by a more stable barrier region in a designed construct of double-stranded DNA. The characteristic time for bubble coalescence and the corresponding distribution are derived, as well as the distribution of coalescence positions along the barrier. Below the melting temperature, we find a Kramers-type barrier crossing behaviour, while at high temperatures, the bubble corners perform drift-diffusion towards coalescence. The results are obtained by mapping the bubble dynamics on the problem of two vicious walkers in opposite potentials.},
  articleno    = {48001},
  author       = {Novotny, T. and Pedersen, Jonas and Ambjörnsson, T. and Hansen, M. S. and Metzler, R.},
  issn         = {0295-5075},
  language     = {eng},
  number       = {4},
  publisher    = {EDP Sciences},
  series       = {Europhysics Letters},
  title        = {Bubble coalescence in breathing DNA: Two vicious walkers in opposite potentials},
  url          = {http://dx.doi.org/10.1209/0295-5075/77/48001},
  volume       = {77},
  year         = {2007},
}