A thermodynamic model for agglomeration of DNA-looping proteins

Simple item page
dc.creatorSumedha
dc.creatorWeigt, Martin
dc.date2008-01-09
dc.date2008-10-20
dc.date.accessioned2026-07-07T11:00:00Z
dc.date.available2026-07-07T11:00:00Z
dc.descriptionIn this paper, we propose a thermodynamic mechanism for the formation of transcriptional foci via the joint agglomeration of DNA-looping proteins and protein-binding domains on DNA: The competition between the gain in protein-DNA binding free energy and the entropy loss due to DNA looping is argued to result in an effective attraction between loops. A mean-field approximation can be described analytically via a mapping to a restricted random-graph ensemble having local degree constraints and global constraints on the number of connected components. It shows the emergence of protein clusters containing a finite fraction of all looping proteins. If the entropy loss due to a single DNA loop is high enough, this transition is found to be of first order.
dc.description12 pages, 5 figures, to app. in JSTAT
dc.identifierhttps://arxiv.org/abs/0801.1480
dc.identifierhttp://arxiv.org/abs/0801.1480
dc.identifierJ. Stat. Mech. (2008) P11005
dc.identifierdoi:10.1088/1742-5468/2008/11/P11005
dc.identifier.urihttp://salesiana.dossiersoluciones.com/handle/123456789/187600
dc.subjectSubcellular Processes
dc.subjectSoft Condensed Matter
dc.subjectStatistical Mechanics
dc.subjectBiological Physics
dc.subjectGenomics
dc.titleA thermodynamic model for agglomeration of DNA-looping proteins
dc.typetext

Files

Collections

arXiv