title: Physical principles and visual-OMP software for optimal PCR design.
abstract: The physical principles of DNA hybridization and folding are described within the context of how they are important for designing optimal PCRs. The multi-state equilibrium model for computing the concentrations of competing unimolecular and bimolecular species is described. Seven PCR design "myths" are stated explicitly, and alternative proper physical models for PCR design are described. This chapter provides both a theoretical framework for understanding PCR design and practical guidelines for users. The Visual-OMP (oligonucleotide modeling platform) package from DNA Software, Inc. is also described.
authors.affiliation: Department of Chemistry, Wayne State University, Detroit, MI, USA.
authors.forename: John
authors.initials: J
authors.lastname: SantaLucia
mesh_terms: D017931:DNA Primers / Q000737:chemistry*; D008956:Models, Chemical; D009693:Nucleic Acid Hybridization; D016133:Polymerase Chain Reaction; D012984:Software
chemical_list: D017931:DNA Primers