title: Bulged Invader probes: activated duplexes for mixed-sequence dsDNA recognition with improved thermodynamic and kinetic profiles.
abstract: Double-stranded oligonucleotides with +1 interstrand zipper arrangements of intercalator-functionalized nucleotides are energetically activated for recognition of mixed-sequence double-stranded DNA. Incorporation of nonyl (C9) bulges at specific positions of these probes, results in more highly affine (>5-fold), faster (>4-fold) and more persistent dsDNA recognition relative to conventional Invader probes.
authors: Department of Chemistry, University of Idaho, 875 Perimeter Dr, Moscow, ID 83844-2343, USA. hrdlicka@uidaho.edu.
authors: Dale C
authors: DC
authors: Guenther
authors: Saswata
authors: S
authors: Karmakar
authors: Patrick J
authors: PJ
authors: Hrdlicka
mesh_terms: D001483:Base Sequence; D004247:DNA / Q000032:analysis* / Q000737:chemistry / Q000235:genetics*; D015342:DNA Probes / Q000032:analysis / Q000737:chemistry* / Q000235:genetics*; D007700:Kinetics; D015394:Molecular Structure; D013816:Thermodynamics
chemical_list: D015342:DNA Probes; D004247:DNA