메뉴 건너뛰기




Volumn 5, Issue , 2015, Pages

Scaffolding of a bacterial genome using MinION nanopore sequencing

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA;

EID: 84936764311     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/srep11996     Document Type: Article
Times cited : (60)

References (20)
  • 1
    • 84878234942 scopus 로고    scopus 로고
    • Characterizing and measuring bias in sequence data
    • Ross, M. G. et al. Characterizing and measuring bias in sequence data. Genome Biol 14, R51, doi: 10.1186/gb-2013-14-5-r51 (2013).
    • (2013) Genome Biol , vol.14 , pp. R51
    • Ross, M.G.1
  • 2
    • 84860756398 scopus 로고    scopus 로고
    • Performance comparison of benchtop high-throughput sequencing platforms
    • Loman, N. J. et al. Performance comparison of benchtop high-throughput sequencing platforms. Nat Biotechnol 30, 434-439, doi: 10.1038/nbt.2198 (2012).
    • (2012) Nat Biotechnol , vol.30 , pp. 434-439
    • Loman, N.J.1
  • 3
    • 84862549616 scopus 로고    scopus 로고
    • Genome characterisation of the genus Francisella reveals insight into similar evolutionary paths in pathogens of mammals and fish
    • Sjödin, A. et al. Genome characterisation of the genus Francisella reveals insight into similar evolutionary paths in pathogens of mammals and fish. BMC Genomics 13, 268, doi: 10.1186/1471-2164-13-268 (2012).
    • (2012) BMC Genomics , vol.13 , pp. 268
    • Sjödin, A.1
  • 4
    • 58149234737 scopus 로고    scopus 로고
    • Real-time DNA sequencing from single polymerase molecules
    • Eid, J. et al. Real-time DNA sequencing from single polymerase molecules. Science 323, 133-138, doi: 10.1126/science.1162986 (2009).
    • (2009) Science , vol.323 , pp. 133-138
    • Eid, J.1
  • 5
    • 77956125365 scopus 로고    scopus 로고
    • A flexible and efficient template format for circular consensus sequencing and SNP detection
    • Travers, K. J., Chin, C. S., Rank, D. R., Eid, J. S. & Turner, S. W. A flexible and efficient template format for circular consensus sequencing and SNP detection. Nucleic Acids Res 38, e159, doi: 10.1093/nar/gkq543 (2010).
    • (2010) Nucleic Acids Res , vol.38 , pp. e159
    • Travers, K.J.1    Chin, C.S.2    Rank, D.R.3    Eid, J.S.4    Turner, S.W.5
  • 6
    • 84902707563 scopus 로고    scopus 로고
    • SSPACE-LongRead: Scaffolding bacterial draft genomes using long read sequence information
    • Boetzer, M. & Pirovano, W. SSPACE-LongRead: scaffolding bacterial draft genomes using long read sequence information. BMC Bioinformatics 15, 211, doi: 10.1186/1471-2105-15-211 (2014).
    • (2014) BMC Bioinformatics , vol.15 , pp. 211
    • Boetzer, M.1    Pirovano, W.2
  • 7
    • 84859633774 scopus 로고    scopus 로고
    • DNA sequencing with nanopores
    • Schneider, G. F. & Dekker, C. DNA sequencing with nanopores. Nat Biotechnol 30, 326-328, doi: 10.1038/nbt.2181 (2012).
    • (2012) Nat Biotechnol , vol.30 , pp. 326-328
    • Schneider, G.F.1    Dekker, C.2
  • 8
    • 84952781954 scopus 로고    scopus 로고
    • A complete bacterial genome assembled de novo using only nanopore sequencing data
    • Loman, N. J., Quick, J. & Simpson, J. T. A complete bacterial genome assembled de novo using only nanopore sequencing data. bioRxiv., doi: 10.1101/015552 (2015).
    • (2015) bioRxiv
    • Loman, N.J.1    Quick, J.2    Simpson, J.T.3
  • 9
    • 84925353483 scopus 로고    scopus 로고
    • Oxford Nanopore Sequencing and de novo Assembly of a Eukaryotic Genome
    • Goodwin, S. et al. Oxford Nanopore Sequencing and de novo Assembly of a Eukaryotic Genome. bioRxiv., doi: 10.1101/013490 (2015).
    • (2015) bioRxiv
    • Goodwin, S.1
  • 10
    • 84942520038 scopus 로고    scopus 로고
    • A reference bacterial genome dataset generated on the MinION™ portable single-molecule nanopore sequencer
    • Quick, J., Quinlan, A. R. & Loman, N. J. A reference bacterial genome dataset generated on the MinION™ portable single-molecule nanopore sequencer. Gigascience 3, 22, doi: 10.1186/2047-217X-3-22 (2014).
    • (2014) Gigascience , vol.3 , pp. 22
    • Quick, J.1    Quinlan, A.R.2    Loman, N.J.3
  • 11
    • 84998842209 scopus 로고    scopus 로고
    • Genome Sequence of Bacterial Interference Strain Staphylococcus aureus 502A
    • Parker, D. et al. Genome Sequence of Bacterial Interference Strain Staphylococcus aureus 502A. Genome Announc 2, doi: 10.1128/genomeA.00284-14 (2014).
    • (2014) Genome Announc , vol.2
    • Parker, D.1
  • 12
    • 85006046111 scopus 로고    scopus 로고
    • Complete Genome Sequence of Pelosinus sp. Strain UFO1 Assembled Using Single-Molecule Real-Time DNA Sequencing Technology
    • Brown, S. D. et al. Complete Genome Sequence of Pelosinus sp. Strain UFO1 Assembled Using Single-Molecule Real-Time DNA Sequencing Technology. Genome Announc 2, doi: 10.1128/genomeA.00881-14 (2014).
    • (2014) Genome Announc , vol.2
    • Brown, S.D.1
  • 13
    • 85003890155 scopus 로고    scopus 로고
    • First complete genome sequence ofSalmonella enterica subsp. enterica serovar Typhimurium strain ATCC 13311 (NCTC 74), a reference strain of multidrug resistance, as achieved by use of PacBio single-molecule real-time technology
    • Terabayashi, Y. et al. First complete genome sequence ofSalmonella enterica subsp. enterica serovar Typhimurium strain ATCC 13311 (NCTC 74), a reference strain of multidrug resistance, as achieved by use of PacBio single-molecule real-time technology. Genome Announc 2, doi: 10.1128/genomeA.00986-14 (2014).
    • (2014) Genome Announc , vol.2
    • Terabayashi, Y.1
  • 14
    • 84924388692 scopus 로고    scopus 로고
    • MinION nanopore sequencing identifies the position and structure of a bacterial antibiotic resistance island
    • Ashton, P. M. et al. MinION nanopore sequencing identifies the position and structure of a bacterial antibiotic resistance island. Nat Biotechnol., doi: 10.1038/nbt.3103 (2014).
    • (2014) Nat Biotechnol
    • Ashton, P.M.1
  • 15
    • 84894273022 scopus 로고    scopus 로고
    • A Benchmark Study on Error Assessment and Quality Control of CCS Reads Derived from the PacBio RS
    • Jiao, X. et al. A Benchmark Study on Error Assessment and Quality Control of CCS Reads Derived from the PacBio RS. J Data Mining Genomics Proteomics 4, doi: 10.4172/2153-0602.1000136 (2013).
    • (2013) J Data Mining Genomics Proteomics , vol.4
    • Jiao, X.1
  • 16
    • 85006059562 scopus 로고    scopus 로고
    • Complete Genome Sequence of Francisella endociliophora Strain FSC1006, Isolated from a Laboratory Culture of the Marine Ciliate Euplotes raikovi
    • Sjödin, A. et al. Complete Genome Sequence of Francisella endociliophora Strain FSC1006, Isolated from a Laboratory Culture of the Marine Ciliate Euplotes raikovi. Genome Announc 2, doi: 10.1128/genomeA.01227-14 (2014).
    • (2014) Genome Announc , vol.2
    • Sjödin, A.1
  • 17
    • 67650904931 scopus 로고    scopus 로고
    • Molecular evolutionary consequences of niche restriction in Francisella tularensis, a facultative intracellular pathogen
    • Larsson, P. et al. Molecular evolutionary consequences of niche restriction in Francisella tularensis, a facultative intracellular pathogen. PLoS Pathog 5, e1000472, doi: 10.1371/journal.ppat.1000472 (2009).
    • (2009) PLoS Pathog , vol.5
    • Larsson, P.1
  • 19
    • 84866266717 scopus 로고    scopus 로고
    • Mapping single molecule sequencing reads using basic local alignment with successive refinement (BLASR): Application and theory
    • Chaisson, M. J. & Tesler, G. Mapping single molecule sequencing reads using basic local alignment with successive refinement (BLASR): application and theory. BMC Bioinformatics 13, 238, doi: 10.1186/1471-2105-13-238 (2012).
    • (2012) BMC Bioinformatics , vol.13 , pp. 238
    • Chaisson, M.J.1    Tesler, G.2
  • 20
    • 77649140807 scopus 로고    scopus 로고
    • Parameters for accurate genome alignment
    • Frith, M. C., Hamada M. & Paul H. Parameters for accurate genome alignment. BMC Bioinformatics. 11, 80, doi: 10.1186/1471-2105-11-80 (2010).
    • (2010) BMC Bioinformatics , vol.11 , pp. 80
    • Frith, M.C.1    Hamada, M.2    Paul, H.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.