About: Bubble Merging in Breathing DNA As a Vicious Walker Problem in Opposite Potentials (Article No. 164117)     Goto   Sponge   NotDistinct   Permalink

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  • We investigate the coalescence of two DNA bubbles initially located at weak domains and separated by a more stable barrier region in a designed construct of double-stranded DNA. In a continuum Fokker-Planck approach, 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 behavior, while at high temperatures, the bubble corners perform drift diffusion toward coalescence. In the calculations, we map the bubble dynamics on the problem of two vicious walkers in opposite potentials. We also present a discrete master equation approach to the bubble coalescence problem.
  • We investigate the coalescence of two DNA bubbles initially located at weak domains and separated by a more stable barrier region in a designed construct of double-stranded DNA. In a continuum Fokker-Planck approach, 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 behavior, while at high temperatures, the bubble corners perform drift diffusion toward coalescence. In the calculations, we map the bubble dynamics on the problem of two vicious walkers in opposite potentials. We also present a discrete master equation approach to the bubble coalescence problem. (en)
Title
  • Bubble Merging in Breathing DNA As a Vicious Walker Problem in Opposite Potentials (Article No. 164117)
  • Bubble Merging in Breathing DNA As a Vicious Walker Problem in Opposite Potentials (Article No. 164117) (en)
skos:prefLabel
  • Bubble Merging in Breathing DNA As a Vicious Walker Problem in Opposite Potentials (Article No. 164117)
  • Bubble Merging in Breathing DNA As a Vicious Walker Problem in Opposite Potentials (Article No. 164117) (en)
skos:notation
  • RIV/00216208:11320/09:00206291!RIV10-GA0-11320___
http://linked.open...avai/riv/aktivita
http://linked.open...avai/riv/aktivity
  • P(GA202/08/0361), Z(MSM0021620834)
http://linked.open...iv/cisloPeriodika
  • 16
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  • 305585
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  • RIV/00216208:11320/09:00206291
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  • Bubble; Merging; Breathing; Vicious; Walker; Problem; Opposite; Potentials; Article; 164117 (en)
http://linked.open.../riv/klicoveSlovo
http://linked.open...odStatuVydavatele
  • US - Spojené státy americké
http://linked.open...ontrolniKodProRIV
  • [CE00E123B863]
http://linked.open...i/riv/nazevZdroje
  • Journal of Chemical Physics
http://linked.open...in/vavai/riv/obor
http://linked.open...ichTvurcuVysledku
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http://linked.open...vavai/riv/projekt
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http://linked.open...v/svazekPeriodika
  • 130
http://linked.open...iv/tvurceVysledku
  • Novotný, Tomáš
  • Ambjornsson, T.
  • Hansen, M. S.
  • Metzler, R.
  • Pedersen, J. N
http://linked.open...ain/vavai/riv/wos
  • 000266885200018
http://linked.open...n/vavai/riv/zamer
issn
  • 0021-9606
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  • 11320
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