Open AccessFast single-stranded desoxyribonucleic acid sequencing between polynucleotide molecules
Author(s) -
Jiang Shao-Chuan,
Linxi Zhang,
Agen Xia,
Hongping Chen
Publication year - 2010
Publication title -
wuli xuebao
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.199
H-Index - 47
ISSN - 1000-3290
DOI - 10.7498/aps.59.4337
Subject(s) - nanopore , dna , polynucleotide , monomer , sequence (biology) , residence time (fluid dynamics) , molecular dynamics , langevin dynamics , desoxyribonucleic acid , chemical physics , biological system , biophysics , materials science , nanotechnology , chemistry , physics , biology , polymer , computational chemistry , statistical physics , biochemistry , geotechnical engineering , engineering , composite material
The dynamics of the translocation of single-stranded desoxyribonucleic acid (DNA) chains through a nanopore under the driving of an applied field is studied by three-dimensional Langevin dynamics simulations. It was found that different monomers correspond to different residence times. With the increase of the length of nanopore, the difference in residence time becomes smaller and smaller. Based on the simplified model, a new method is proposed to discriminate between the poly(dA) and poly(dC) of single-stranded DNA chains by recording the residence time of monomer. The method is utilized to predict the sequence of seventeen different chains, and the average accuracy is about 951%. If the residence time of monomer can be well recorded in the DNA translocation experiment, the sequence of the whole DNA will be predicted once and for all. With the improvement of the method, it will provide a low-cost high-throughput way to predict the sequence of DNA.