Single-molecule electrical random resequencing of DNA and RNA

Scientific Reports

Volumn 2, Issue , 2012, Pages

  Ohshiro, Takahito ^a   Matsubara, Kazuki ^a   Tsutsui, Makusu ^a   Furuhashi, Masayuki ^a   Taniguchi, Masateru ^a   Kawai, Tomoji ^a  

^a OSAKA UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

NUCLEOTIDE;

ARTICLE; CHEMISTRY; DNA SEQUENCE; ELECTRIC CONDUCTIVITY; HUMAN; METHODOLOGY; NANOPORE; NANOTECHNOLOGY; SEQUENCE ANALYSIS;

ELECTRIC CONDUCTIVITY; HUMANS; NANOPORES; NANOTECHNOLOGY; NUCLEOTIDES; SEQUENCE ANALYSIS, DNA; SEQUENCE ANALYSIS, RNA;

EID: 84863833295     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/srep00501     Document Type: Article

References (30)

1. Branton, D. et al. The potential and challenges of nanopore sequencing. Nat. Biotech. 26, 1146-1153 (2008).
2. Schloss, J. A. How to get genomes at one ten-thousandth the cost. Nat. Biotech. 26, 1113-1115 (2008).
3. Service, R. F. The race for the $1000 genome. Science 311, 1544-1546 (2006).
4. Zwolak, M. & Di Ventra, M. Colloquim: Physical approaches to DNA sequencing and detection. Rev. Mod. Phys. 80, 141-165 (2008).
5. Deamer, D. W. & Branton, D. Characterization of nucleic acids by nanopore analysis. Acc. Chem. Res. 35, 817-825 (2002).
6. Clarke, J. et al. Continuous base identification for single-molecule nanopore DNA sequencing. Nat. Nanotechnol. 4, 265-270 (2009).
7. Stoddart, D., Heron, A. J., Mikhailova, E., Maglia, G. & Bayley, H. Singlenucleotide discrimination in immobilizedDNAoligonucleotides with a biological nanopore. Proc. Natl. Acad. Sci. USA 106, 7702-7707 (2009).
8. Olasagasti, F. et al. Replication of individual DNA molecules under electronic control using a protein nanopore. Nat. Nanotechnol. 5, 798-806 (2010).
9. Storm, A. J., Chen, J. H., Ling, X. S., Zanbergen, H. W. & Dekker, C. Fabrication of solid-state nanopores with single-nanometre precision. Nat. Mater. 2, 537-541 (2003).
10. Fologea, D. et al.Detecting single strandedDNAwith a solid state nanopore. Nano Lett. 5, 1905-1909 (2005). (Pubitemid 41548439)
11. Storm, A. J. et al. Fast DNA translocation through a solid-state nanopore. Nano Lett. 5, 1193-1197 (2005). (Pubitemid 41084390)
12. Keyser, U. F. et al. Direct force measurements on DNA in a solid-state nanopore. Nat. Phys. 2, 473-477 (2006). (Pubitemid 44022563)
13. Dekker, C. Solid-state nanopores. Nat. Nanotechnol. 2, 209-215 (2007). (Pubitemid 46739810)
14. Gershow, M. & Golovchenko, J. A. Recapturing and trapping single molecules with a solid-state nanopore. Nat. Nanotechnol. 2, 775-779 (2007). (Pubitemid 350223347)
15. Singer, A. et al. Nanopore based sequence specific detection of duplex DNA for genomic profiling. Nano Lett. 10, 738-742 (2010).
16. Hall, A. R. et al.Hybrid pore formation by directed insertion of a-haemolysin into solid-state nanopores. Nat. Nanotechnol. 5, 874-877 (2010).
17. Garaj, S. et al. Graphene as a subnanometre trans-electrode membrane. Nature 467, 190-193 (2010).
18. He, J., Lin, L., Zhang, P. & Lindsay, S. Identification of DNA basepairing via tunnel-current decay. Nano Lett. 7, 3854-3858 (2007).
19. Chang, S. et al. Tunneling readout of hydrogen-bonding-based recognition. Nat. Nanotechnol. 4, 297-301 (2009).
20. Taniguchi, M., Tsutsui, M., Yokota, K. & Kawai, T. Fabrication of the gating nanopore device. Appl. Phys. Lett. 95, 123701-123703 (2009).
21. Tsutsui, M., Taniguchi, M., Yokota, K. & Kawai, T. Identifying single nucleotides by tunnelling current. Nat. Nanotechnol. 5, 286-290 (2010).
22. Huang, S. et al. Identifying single bases in a DNA oligomer with electron tunnelling. Nat. Nanotechnol. 5, 868-873 (2010).
23. Ivanov, A. P. et al. DNA Tunneling detector embedded in a nanopore. Nano Lett. 11, 279-285 (2011)
24. Zwolak, M. & and Di Ventra, M. Electronic signature of DNA nucleotides via transverse transport. Nano Lett. 5, 421-424 (2005). (Pubitemid 40449709)
25. Lagerqvist, J., Zwolak, M. & Di Ventra, M. Fast DNA sequencing via transverse electronic transport. Nano Lett. 6, 779-782 (2006).
26. Lagerqvist, J., Zwolak, M. & Di Ventra, M. Influence of the environment and probes on rapid DNA sequencing via transverse electronic transport. Biophys. J. 93, 2384-2390 (2007). (Pubitemid 47511138)
27. Edwards, A. & Caskey, C. T. Closure Strategies for Random DNA Sequencing. Methods. 3, 41-47 (1991).
28. Fleischmann, R. et al. Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. Science 269, 496-512 (1995).
29. Tsutsui, M., Shoji, K., Taniguchi, M. & Kawai, T. Formation and self-breaking mechanism of stable atom-sized junctions. Nano Lett. 8, 345-349 (2007). (Pubitemid 351177826)
30. Roush, S. & Slack, F. J. The let-7 family of micro RNAs. Trends Cell Biol. 18, 505-516 (2008).