title: Assessing the differential affinity of small molecules for noncanonical DNA structures.
abstract: The targeting of higher-order DNA structures has been thoroughly developed with G-quadruplex DNA but not with other structures like branched DNA (also known as DNA junctions). Because these alternative higher-order DNA architectures might be of high biological relevance, we implemented a high-throughput version of the FRET melting assay that enabled us to map the interactions of a candidate with four different DNA structures (duplex- and quadruplex DNA, three- and four-way junctions) in a rapid and reliable manner. We also introduce a novel index, the BONDS (branched and other noncanonical DNA selectivity) index, to conveniently quantify this differential affinity.
authors.affiliation: Institut de Chimie Moléculaire de l'Université de Bourgogne, 9 Avenue Alain Savary, Dijon, France.
authors.forename: Loic
authors.initials: L
authors.lastname: Stefan
authors.forename: Benoît
authors.initials: B
authors.lastname: Bertrand
authors.forename: Philippe
authors.initials: P
authors.lastname: Richard
authors.forename: Pierre
authors.initials: P
authors.lastname: Le Gendre
authors.forename: Franck
authors.initials: F
authors.lastname: Denat
authors.forename: Michel
authors.initials: M
authors.lastname: Picquet
authors.forename: David
authors.initials: D
authors.lastname: Monchaud
mesh_terms: D016588:Anticarcinogenic Agents / Q000737:chemistry / Q000494:pharmacology; D001483:Base Sequence; D002110:Caffeine / Q000031:analogs & derivatives / Q000494:pharmacology*; D004247:DNA / Q000737:chemistry*; D031541:Fluorescence Resonance Energy Transfer; D054856:G-Quadruplexes / Q000187:drug effects; D008958:Models, Molecular; D009690:Nucleic Acid Conformation / Q000187:drug effects*; D050607:Organogold Compounds / Q000737:chemistry / Q000494:pharmacology*; D054852:Small Molecule Libraries / Q000737:chemistry / Q000494:pharmacology*; D013816:Thermodynamics
chemical_list: D016588:Anticarcinogenic Agents; D050607:Organogold Compounds; D054852:Small Molecule Libraries; D002110:Caffeine; D004247:DNA