title: Pre-melting dynamics of DNA and its relation to specific functions.
abstract: We discuss connections between the nonlinear dynamics of double-stranded DNA, experimental findings, and specific DNA functions. We begin by discussing how thermally induced localized openings (bubbles) of the DNA double strand are important for interpreting dynamic force spectroscopy data. Then we demonstrate a correlation between a sequence-dependent propensity for pre-melting bubble formation and transcription initiation and other regulatory effects in viral DNA. Finally, we discuss the possibility of a connection between DNA dynamics and the ability of repair proteins to recognize ultraviolet (UV) radiation damage sites.
authors.affiliation: Theoretical Division, Los Alamos National Laboratory, Los Alamos, NM 87545, USA.
authors.forename: Boian
authors.initials: B
authors.lastname: Alexandrov
authors.forename: Nikolaos K
authors.initials: NK
authors.lastname: Voulgarakis
authors.forename: Kim O
authors.initials: KO
authors.lastname: Rasmussen
authors.forename: Anny
authors.initials: A
authors.lastname: Usheva
authors.forename: Alan R
authors.initials: AR
authors.lastname: Bishop