다음과 같은 기능을 한번의 로그인으로 사용 할 수 있습니다.
NTIS 바로가기
Scientific data, v.2, 2015년, pp.150014 -
Utturkar, Sagar M (Graduate School of Genome Science and Technology, University of Tennessee , Knoxville, Tennessee 37919, USA) , Klingeman, Dawn M (Biosciences Division, Oak Ridge National Laboratory , Oak Ridge, Tennessee 37831, USA) , Bruno-Barcena, José (Department of Plant and Microbial Biology, North Carolina State University , Raleigh, North Carolina 27695, USA) , M (Department of Biological and Agricultural Engineering, North Carolina State University , Raleigh, North Carolina 27695, USA) , Chinn, Mari S (Department of Plant and Microbial Biology, North Carolina State University , Raleigh, North Carolina 27695, USA) , Grunden, Amy M (LanzaTech , Skokie, Illinois 60077, USA) , Köpke, Michael (Graduate School of Genome Science and Technology, University of Tennessee , Knoxville, Tennessee 37919, USA) , Brown, Steven D
AI-Helper
During the past decade, DNA sequencing output has been mostly dominated by the second generation sequencing platforms which are characterized by low cost, high throughput and shorter read lengths for example, Illumina. The emergence and development of so called third generation sequencing platforms ...
NCBI Sequence Read Archive 2014 SRP030033
Dryad Utturkar S. M. 2015 http://dx.doi.org/10.5061/dryad.6fm1p
GenBank Brown S. D. 2014 NC_022592.1
GenBank Koepke M. 2010 NC_014328.1
Margulies M. et al. Genome sequencing in microfabricated high-density picolitre reactors . Nature 437 , 376 – 380 ( 2005 ). 16056220
van Dijk E. L. , Auger H. , Jaszczyszyn Y. & Thermes C. Ten years of next-generation sequencing technology . Trends Genet. 30 , 418 – 426 ( 2014 ). 25108476
Liu L. et al. Comparison of next-generation sequencing systems . J. Biomed. Biotechnol. 2012 , 251364 ( 2012 ). 22829749
Brown S. et al. Comparison of single-molecule sequencing and hybrid approaches for finishing the genome of Clostridium autoethanogenum and analysis of CRISPR systems in industrial relevant Clostridia . Biotechnol. Biofuels 7 , 40 ( 2014 ). 24655715
Quail M. A. et al. A tale of three next generation sequencing platforms: comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers . BMC Genomics 13 , 341 ( 2012 ). 22827831
Koren S. et al. Reducing assembly complexity of microbial genomes with single-molecule sequencing . Genome Biol. 14 , R101 ( 2013 ). 24034426
Roberts R. J. , Carneiro M. O. & Schatz M. C. The advantages of SMRT sequencing . Genome Biol. 14 , 405 ( 2013 ). 23822731
Kim K. E. et al. Long-read, whole-genome shotgun sequence data for five model organisms . Sci. Data 1 , 140045 ( 2014 ). 25977796
Koren S. et al. Hybrid error correction and de novo assembly of single-molecule sequencing reads . Nat. Biotechnol. 30 , 693 – 700 ( 2012 ). 22750884
Chin C. S. et al. Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data . Nat. Methods 10 , 563 – 569 ( 2013 ). 23644548
Utturkar S. M. et al. Evaluation and validation of de novo and hybrid assembly techniques to derive high quality genome sequences . Bioinformatics 30 , 2709 – 2716 ( 2014 ). 24930142
Walker B. J. et al. Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement . PLoS ONE 9 , e112963 ( 2014 ). 25409509
Salmela L. & Rivals E. LoRDEC: accurate and efficient long read error correction . Bioinformatics 30 , 3506 – 3514 ( 2014 ). 25165095
Lee H. et al. Error correction and assembly complexity of single molecule sequencing reads . Preprint at BioRxiv http://dx.doi.org/10.1101/006395 ( 2014 ).
Hackl T. , Hedrich R. , Schultz J. & Forster F. proovread: large-scale high-accuracy PacBio correction through iterative short read consensus . Bioinformatics 30 , 3004 – 3011 ( 2014 ). 25015988
Ye C. , Hill C. , Koren S. , Ruan J. , Zhanshan M. , Yorke J. A. & Zimin A. DBG2OLC: Efficient assembly of large genomes using the compressed overlap graph . Preprint at arXiv http://arxiv.org/abs/1410.2801 ( 2014 ).
Prjibelski A. D. et al. ExSPAnder: a universal repeat resolver for DNA fragment assembly . Bioinformatics 30 , i293 – i301 ( 2014 ). 24931996
English A. C. , Salerno W. J. & Reid J. G. PBHoney: identifying genomic variants via long-read discordance and interrupted mapping . BMC Bioinformatics 15 , 180 ( 2014 ). 24915764
Satou K. et al. Complete genome sequences of eight Helicobacter pylori strains with different virulence factor genotypes and methylation profiles, isolated from patients with diverse gastrointestinal diseases on Okinawa Island, Japan, determined using PacBio Single-Molecule Real-Time Technology . Genome Announc. 2 , 2 e00286 – 14 ( 2014 ). 24744331
Mehnaz S. , Bauer J. S. & Gross H. Complete genome sequence of the sugar cane endophyte Pseudomonas aurantiaca PB-St2, a disease-suppressive bacterium with antifungal activity toward the plant pathogen Colletotrichum falcatum . Genome Announc. 2 , 1 e01108 – e01113 ( 2014 ). 24459254
Harhay G. P. et al. Complete closed genome sequences of three Bibersteinia trehalosi nasopharyngeal isolates from cattle with shipping fever . Genome Announc. 2 , 1 e00084 – 14 ( 2014 ). 24526647
Eckweiler D. , Bunk B. , Sproer C. , Overmann J. & Haussler S. Complete genome sequence of highly adherent Pseudomonas aeruginosa small-colony variant SCV20265 . Genome Announc. 2 , 1 e01232 – 13 ( 2014 ). 24459283
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 , 5 e00881 – 14 ( 2014 ). 25189589
Koren S. & Phillippy A. M. ONE chromosome, one contig: complete microbial genomes from long-read sequencing and assembly . Curr. Opin. Microbiol. 23C , 110 – 120 ( 2014 ). 25461581
Davis B. M. , Chao M. C. & Waldor M. K. Entering the era of bacterial epigenomics with single molecule real time DNA sequencing . Curr. Opin. Microbiol. 16 , 192 – 198 ( 2013 ). 23434113
Lesiak J. M. , Liebl W. & Ehrenreich A. Development of an in vivo methylation system for the solventogen Clostridium saccharobutylicum NCP 262 and analysis of two endonuclease mutants . J. Biotechnol. 188C , 97 – 99 ( 2014 ). 25087740
Mermelstein L. D. & Papoutsakis E. T. In vivo methylation in Escherichia coli by the Bacillus subtilis phage phi 3T I methyltransferase to protect plasmids from restriction upon transformation of Clostridium acetobutylicum ATCC 824 . Appl. Environ. Microbiol. 59 , 1077 – 1081 ( 1993 ). 8386500
Pyne M. E. , Moo-Young M. , Chung D. A. & Chou C. P. Development of an electrotransformation protocol for genetic manipulation of Clostridium pasteurianum . Biotechnol. Biofuels 6 , 50 ( 2013 ). 23570573
Pushkarev D. , Neff N. F. & Quake S. R. Single-molecule sequencing of an individual human genome . Nat. Biotechnol. 27 , 847 – 850 ( 2009 ). 19668243
Ju J. et al. Four-color DNA sequencing by synthesis using cleavable fluorescent nucleotide reversible terminators . Proc. Natl Acad. Sci. USA 103 , 19635 – 19640 ( 2006 ). 17170132
Clarke J. et al. Continuous base identification for single-molecule nanopore DNA sequencing . Nat. Nanotechnol. 4 , 265 – 270 ( 2009 ). 19350039
BusinessWire. Quantum Biosystems Demonstrates First Reads Using Quantum Single Molecule Sequencing. http://www.businesswire.com/news/home/20140127005012/en/Quantum-Biosystems-Demonstrates-Reads-Quantum-Single-Molecule#.VIH5dDHF8fU ( 2014 ).
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 ( 2014 ). 25386338
Bruno-Barcena J. M. , Chinn M. S. & Grunden A. M. Genome sequence of the autotrophic acetogen Clostridium autoethanogenum JA1-1 strain DSM 10061, a producer of ethanol from carbon monoxide . Genome Announc. 1 , 4 e00628 – 13 ( 2013 ). 23950130
Kopke M. et al. Clostridium ljungdahlii represents a microbial production platform based on syngas . Proc. Natl Acad. Sci. USA 107 , 13087 – 13092 ( 2010 ). 20616070
Yang S. , Klingeman D. M. & Brown S. D . Microbial Metabolic Engineering: Methods and Protocols Vol. 834 , 111 – 136 (Springer, 2012 ).
Pacific-BioSciences. Detecting DNA Base Modifications . http://www.pacb.com/pdf/TN_Detecting_DNA_Base_Modifications.pdf ( 2012 ).
Illumina-Inc. CASAVA v1.8.2 User Guide http://support.illumina.com/content/dam/illumina-support/documents/myillumina/a557afc4-bf0e-4dad-9e59-9c740dd1e751/casava_userguide_15011196d.pdf ( 2011 ).
Salzberg S. L. et al. GAGE: A critical evaluation of genome assemblies and assembly algorithms . Genome Res. 22 , 557 – 567 ( 2012 ). 22147368
CLC, CLC Genomics Workbenach Manual—Trimming using the Trim tool. http://www.clcsupport.com/clcgenomicsworkbench/800/index.php?manual=Trimming_using_Trim_tool.html ( 2015 ).
Pacific-Biosciences, Statistics Output Guide. http://files.pacb.com/software/instrument/1.3.1/Statistics%20Output%20Guide.pdf ( 2014 ).
Langmead B. & Salzberg S. L. Fast gapped-read alignment with Bowtie 2 . Nat. Methods 9 , 357 – 359 ( 2012 ). 22388286
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 ( 2012 ). 22988817
Copyright KISTI. All Rights Reserved.
※ AI-Helper는 부적절한 답변을 할 수 있습니다.