GENESUS: a two-step sequence design program for DNA nanostructure self-assembly.
DNA has been recognized as an ideal material for bottom-up construction of nanometer scale structures by self-assembly. The generation of sequences optimized for unique self-assembly (GENESUS) program reported here is a straightforward method for generating sets of strand sequences optimized for self-assembly of arbitrarily designed DNA nanostructures by a generate-candidates-and-choose-the-best strategy. A scalable procedure to prepare single-stranded DNA having arbitrary sequences is also presented. Strands for the assembly of various structures were designed and successfully constructed, validating both the program and the procedure.
Division of Genome Analysis, Research Center for Genetic Information, Medical Institute of Bioregulation, Kyushu University, Fukuoka, Japan.
Takanobu
T
Tsutsumi
Division of Genome Analysis, Research Center for Genetic Information, Medical Institute of Bioregulation, Kyushu University, Fukuoka, Japan; Business Design and Innovation Laboratory, Corporate R&D, Sony Corporation, Tokyo, Japan.
Takeshi
T
Asakawa
Research Institute of Biomolecule Metrology Co., Ltd, Tsukuba, Ibaraki, Japan.
Akemi
A
Kanegami
Research Institute of Biomolecule Metrology Co., Ltd, Tsukuba, Ibaraki, Japan.
Takao
T
Okada
Division of Genome Analysis, Research Center for Genetic Information, Medical Institute of Bioregulation, Kyushu University, Fukuoka, Japan.
Tomoko
T
Tahira
Division of Genome Analysis, Research Center for Genetic Information, Medical Institute of Bioregulation, Kyushu University, Fukuoka, Japan.
Kenshi
K
Hayashi
D004247:DNA / Q000737:chemistry / Q000378:metabolism / Q000648:ultrastructure*; D049329:Nanostructures / Q000737:chemistry / Q000648:ultrastructure*; D036103:Nanotechnology / Q000379:methods*; D009690:Nucleic Acid Conformation
D004247:DNA
DNA nanostructures; dynamic programming algorithm; free energy; octahedron; self-assembly; sequence design