2006/10/26 by Tomáš Novotný, Tomas Novotny, Jonas N. Pedersen +5 · 2 citations
Biochemistry, Genetics and Molecular Biology · Engineering · Physics and Astronomy · #DNA and Nucleic Acid Chemistry #Diffusion and Search Dynamics #Nanopore and Nanochannel Transport Studies #cond-mat.stat-mech
paper · pdf · doi:10.1209/0295-5075/77/48001
published as Europhys Lett 77, 48001 (2007) · 7 pages, 4 figures
arxiv created 2006/10/26 · openalex publication_date 2007/01/25 · arxiv updated 2009/12/01 · openalex created_date 2025/10/10 · openalex updated_date 2026/07/30
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.