Tel Aviv University, Applied Mathematics Seminar Date: Tuesday June 04, 2013, 15:10 Place: Schreiber Bldg, Room 309 Speaker: David Holcman, Ecole Normale Superieure Title: DNA looping, telomere organization and dynamics of DNA locus: from modeling to data analysis Abstract: The nuclear organization remains partially understood and physical principles remain elusive. Polymer models play a central role in modeling DNA dynamic. I will present recent progress to estimate DNA looping in free and confined environment, the search for a small target by a DNA locus and finally telomere organization in small cluster in yeast. Methods are based on a stochastic approach of polymer physics, asymptotic analysis in high dimensional space, the narrow escape theory and stochastic simulations for extracting information from live cell images. We obtain estimates for the confinement sub-domain of a DNA locus extracted from chromosomal capture data. We access the invivo binding constant of telomeres in Yeast and finally we determine the polymer properties near a DNA locus during a dsDNA break. N.Hoze, C. Amuroso, M. Ruault, A Taddei, D. Holcman, Dynamics of telomere clustering in the nucleus, Molecular Biology of the Cell, (in press) 2013 N. Hoze A., D. Holcman, Coagulation-fragmentation for a finite number of particles and application to telomere clustering in the yeast nucleus, Physics Letters A,376, 6-7, 845-849, 2012. A. Amitai, I. Kupka D. Holcman, Computation of the Mean First-Encounter Time Between the Ends of a Polymer Chain, PRL 109, 108302, (2012). Webpage of the applied mathematics seminar: <https://sites.google.com/site/tauamathseminar/> ______________________________________________________________________ Dr. Yoel Shkolnisky Department of Applied Mathematics School of Mathematical Sciences phone: 972-3-640-8705 Tel Aviv University, fax : 972-3-640-9357 Tel Aviv, 69978 Israel email: <yoelsh@post.tau.ac.il> ______________________________________________________________________ --------------------------------------------------------- Technion Math Net-2 (TECHMATH2) Editor: Michael Cwikel <techm@math.technion.ac.il> Announcement from: Yoel Shkolnisky <yoelsh@post.tau.ac.il>