title: Stability of a surface-bound oligonucleotide duplex inferred from molecular dynamics: a study of single nucleotide defects using DNA microarrays.
abstract: Microarray technology uses the sequence dependent hybridization (binding) affinity of surface-bound oligonucleotide strands for the quantification of complex nucleic acid mixtures. In spite of its huge potential in life science and medicine, microarray oligonucleotide hybridization remains far from being understood. Taking advantage of microarray combinatorial possibilities we show that, although surface bound, the hybridization affinities of single-base mismatched oligonucleotides can be derived from first principles using parameters from bulk.
authors.affiliation: Experimentalphysik I, Universität Bayreuth, D-95440 Bayreuth, Germany.
authors.forename: Thomas
authors.initials: T
authors.lastname: Naiser
authors.forename: Jona
authors.initials: J
authors.lastname: Kayser
authors.forename: Timo
authors.initials: T
authors.lastname: Mai
authors.forename: Wolfgang
authors.initials: W
authors.lastname: Michel
authors.forename: Albrecht
authors.initials: A
authors.lastname: Ott
mesh_terms: D000465:Algorithms; D004247:DNA / Q000737:chemistry; D008956:Models, Chemical; D009693:Nucleic Acid Hybridization; D020411:Oligonucleotide Array Sequence Analysis; D009841:Oligonucleotides / Q000737:chemistry*; D013816:Thermodynamics
chemical_list: D009841:Oligonucleotides; D004247:DNA