Real-time selective sequencing using nanopore technology

Nature Methods

Volumn 13, Issue 9, 2016, Pages 751-754

  Loose, Matthew ^a   Malla, Sunir ^a   Stout, Michael ^a  

^a UNIVERSITY OF NOTTINGHAM   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

COMPLEMENT; MOLECULAR MOTOR;

AMPLICON; ARTICLE; DATA ANALYSIS SOFTWARE; DNA SEQUENCE; DYNAMICS; ELECTRIC POTENTIAL; GENE MAPPING; GENOME; HIGH THROUGHPUT SEQUENCING; HUMAN; NANOPORE; NANOTECHNOLOGY; PRIORITY JOURNAL; ENTEROBACTERIA PHAGE LAMBDA; GENE LIBRARY; GENETICS; HUMAN GENOME; INFORMATION PROCESSING; NUCLEIC ACID AMPLIFICATION; NUCLEOTIDE REPEAT; PROCEDURES; TIME FACTOR;

AUTOMATIC DATA PROCESSING; BACTERIOPHAGE LAMBDA; GENE LIBRARY; GENOME, HUMAN; HIGH-THROUGHPUT NUCLEOTIDE SEQUENCING; HUMANS; NANOPORES; NUCLEIC ACID AMPLIFICATION TECHNIQUES; REPETITIVE SEQUENCES, NUCLEIC ACID; SEQUENCE ANALYSIS, DNA; TIME FACTORS;

EID: 84980361397     PISSN: 15487091     EISSN: 15487105     Source Type: Journal    
DOI: 10.1038/nmeth.3930     Document Type: Article

References (26)

1. Ip, C.L.C. et al. F1000Research 4, 1075 (2015).
2. Heron, A. et al. Method for attaching one or more polynucleotide binding proteins to a target polynucelotide. WO patent 110813 (2015).
3. Heron, A. et al. Modified helicases. US patent 0191709 (2015).
4. Moysey, R. & Heron, A.J. Method of characterizing a target polynucleotide using a pore and a HEL308 helicase. WO patent 057495 (2013).
5. Urban, J.M., Bliss, J., Lawrence & Gerbi, S.A. Preprint at http://biorxiv.org/content/early/2015/06/22/019281 (2015).
6. Timp, W., Comer, J. & Aksimentiev, A. Biophys. J. 102, L37-L39 (2012).
7. Goodwin, S. et al. Genome Res. 25, 1750-1756 (2015).
8. Loman, N.J., Quick, J. & Simpson, J.T. Nat. Methods 12, 733-735 (2015).
9. Sankoff, D. & Kruskal, J.B. Time Warps, String Edits, and Macromolecules: The Theory and Practice of Sequence Comparison (Addison-Wesley, 1983).
10. Miodonska, Z., Bugdol, M.D. & Krecichwost, M. Comput. Biol. Med. 69, 277-285 (2016).
11. Skutkova, H., Vitek, M., Sedlar, K. & Provaznik, I. J. Theor. Biol. 385, 20-30 (2015).
12. Quick, J. et al. Nature 530, 228-232 (2016).
13. Quick, J. et al. Genome Biol. 16, 114 (2015).
14. Ashton, P.M. et al. Nat. Biotechnol. 33, 296-300 (2015).
15. Greninger, A.L. et al. Genome Med. 7, 99 (2015).
16. Albanese, D. et al. arXiv https://arxiv.org/pdf/1202.6548.pdf (2012).
17. Müller, M. Information Retrieval for Music and Motion (Springer, Berlin, Heidelberg, 2007).
18. Sart, D., Mueen, A., Najjar, W., Keogh, E. & Niennattrakul, V. in 2010 IEEE 10th International Conference on Data Mining (eds. Webb, G.I., Liu, B., Zhang, C., Gunopulos, D. & Wu, X.) 1001-1006 (Conference Publishing Services, 2010).
19. Levenshtein, V.I. Sov. Phys. Dokl. 10, 707-710 (1966).
20. Needleman, S.B. & Wunsch, C.D. J. Mol. Biol. 48, 443-453 (1970).
21. Smith, T.F. & Waterman, M.S. J. Mol. Biol. 147, 195-197 (1981).
22. Quinlan, A.R. & Hall, I.M. Bioinformatics 26, 841-842 (2010).
23. Quinlan, A.R. Curr. Protoc. Bioinformatics 47, 11.12.1-11.12.34 (2014).
24. Loose, M. minoTour-a platform for real-time analysis and management of Oxford Nanopore minION reads https://dx.doi.org/10.6084/m9.figshare.1159099.v2 (2014).
25. Loman, N.J. & Quinlan, A.R. Bioinformatics 30, 3399-3401 (2014).
26. Watson, M. et al. Bioinformatics 31, 114-115 (2015).