title: Strand separation in negatively supercoiled DNA.
abstract: We consider Benham's model for strand separation in negatively supercoiled circular DNA, and study denaturation as function of the linking difference density kappa<0. We propose a statistical version of this model, based on bayesian segmentation methods of current use in bioinformatics; this leads to new algorithms with priors adapted to supercoiled DNA, taking into account the random nature of the free energies needed to denature base pairs.
authors.affiliation: Section de Mathématiques, 2-4 Rue du Lièvre, CP 64 CH-1211, Genève 4, Switzerland. christian.mazza@math.unige.ch
authors.forename: Christian
authors.initials: C
authors.lastname: Mazza
mesh_terms: D001499:Bayes Theorem; D004247:DNA / Q000235:genetics; D004278:DNA, Superhelical / Q000235:genetics* / Q000378:metabolism; D008957:Models, Genetic; D009691:Nucleic Acid Denaturation / Q000235:genetics; D014158:Transcription, Genetic / Q000235:genetics
chemical_list: D004278:DNA, Superhelical; D004247:DNA