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

Research output: Contribution to journalArticle


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.


External organisations
  • Nordic Institute for Theoretical Atomic Physics (NORDITA), Copenhagen
  • Massachusetts Institute of Technology
Research areas and keywords

Subject classification (UKÄ) – MANDATORY

  • Physical Sciences
Original languageEnglish
Article number48001
JournalEurophysics Letters
Issue number4
Publication statusPublished - 2007
Publication categoryResearch