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Results: 1 to 20 of 119

1.

Development of a dual-index sequencing strategy and curation pipeline for analyzing amplicon sequence data on the MiSeq Illumina sequencing platform.

Kozich JJ, Westcott SL, Baxter NT, Highlander SK, Schloss PD.

Appl Environ Microbiol. 2013 Sep;79(17):5112-20. doi: 10.1128/AEM.01043-13. Epub 2013 Jun 21.

PMID:
23793624
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

An improved dual-indexing approach for multiplexed 16S rRNA gene sequencing on the Illumina MiSeq platform.

Fadrosh DW, Ma B, Gajer P, Sengamalay N, Ott S, Brotman RM, Ravel J.

Microbiome. 2014 Feb 24;2(1):6. doi: 10.1186/2049-2618-2-6.

PMID:
24558975
[PubMed]
Free PMC Article
3.

Species identification and profiling of complex microbial communities using shotgun Illumina sequencing of 16S rRNA amplicon sequences.

Ong SH, Kukkillaya VU, Wilm A, Lay C, Ho EX, Low L, Hibberd ML, Nagarajan N.

PLoS One. 2013 Apr 8;8(4):e60811. doi: 10.1371/journal.pone.0060811. Print 2013.

PMID:
23579286
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Advancing our understanding of the human microbiome using QIIME.

Navas-Molina JA, Peralta-Sánchez JM, González A, McMurdie PJ, Vázquez-Baeza Y, Xu Z, Ursell LK, Lauber C, Zhou H, Song SJ, Huntley J, Ackermann GL, Berg-Lyons D, Holmes S, Caporaso JG, Knight R.

Methods Enzymol. 2013;531:371-444. doi: 10.1016/B978-0-12-407863-5.00019-8.

PMID:
24060131
[PubMed - indexed for MEDLINE]
5.

Comparison of two next-generation sequencing technologies for resolving highly complex microbiota composition using tandem variable 16S rRNA gene regions.

Claesson MJ, Wang Q, O'Sullivan O, Greene-Diniz R, Cole JR, Ross RP, O'Toole PW.

Nucleic Acids Res. 2010 Dec;38(22):e200. doi: 10.1093/nar/gkq873. Epub 2010 Sep 29.

PMID:
20880993
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Ultra-high-throughput microbial community analysis on the Illumina HiSeq and MiSeq platforms.

Caporaso JG, Lauber CL, Walters WA, Berg-Lyons D, Huntley J, Fierer N, Owens SM, Betley J, Fraser L, Bauer M, Gormley N, Gilbert JA, Smith G, Knight R.

ISME J. 2012 Aug;6(8):1621-4. doi: 10.1038/ismej.2012.8. Epub 2012 Mar 8.

PMID:
22402401
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

High throughput whole rumen metagenome profiling using untargeted massively parallel sequencing.

Ross EM, Moate PJ, Bath CR, Davidson SE, Sawbridge TI, Guthridge KM, Cocks BG, Hayes BJ.

BMC Genet. 2012 Jul 2;13:53. doi: 10.1186/1471-2156-13-53.

PMID:
22747657
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Analysis, optimization and verification of Illumina-generated 16S rRNA gene amplicon surveys.

Nelson MC, Morrison HG, Benjamino J, Grim SL, Graf J.

PLoS One. 2014 Apr 10;9(4):e94249. doi: 10.1371/journal.pone.0094249. eCollection 2014.

PMID:
24722003
[PubMed - in process]
Free PMC Article
9.

Analysis of the intestinal microbiota using SOLiD 16S rRNA gene sequencing and SOLiD shotgun sequencing.

Mitra S, Förster-Fromme K, Damms-Machado A, Scheurenbrand T, Biskup S, Huson DH, Bischoff SC.

BMC Genomics. 2013;14 Suppl 5:S16. doi: 10.1186/1471-2164-14-S5-S16. Epub 2013 Oct 16.

PMID:
24564472
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Quantification of microRNA expression with next-generation sequencing.

Eminaga S, Christodoulou DC, Vigneault F, Church GM, Seidman JG.

Curr Protoc Mol Biol. 2013 Jul;Chapter 4:Unit 4.17. doi: 10.1002/0471142727.mb0417s103.

PMID:
23821442
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Generation of multimillion-sequence 16S rRNA gene libraries from complex microbial communities by assembling paired-end illumina reads.

Bartram AK, Lynch MD, Stearns JC, Moreno-Hagelsieb G, Neufeld JD.

Appl Environ Microbiol. 2011 Jun;77(11):3846-52. doi: 10.1128/AEM.02772-10. Epub 2011 Apr 1. Erratum in: Appl Environ Microbiol. 2011 Aug;77(15):5569.

PMID:
21460107
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Comparison of three next-generation sequencing platforms for metagenomic sequencing and identification of pathogens in blood.

Frey KG, Herrera-Galeano JE, Redden CL, Luu TV, Servetas SL, Mateczun AJ, Mokashi VP, Bishop-Lilly KA.

BMC Genomics. 2014 Feb 4;15:96. doi: 10.1186/1471-2164-15-96.

PMID:
24495417
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Efficacy of a 3rd generation high-throughput sequencing platform for analyses of 16S rRNA genes from environmental samples.

Mosher JJ, Bernberg EL, Shevchenko O, Kan J, Kaplan LA.

J Microbiol Methods. 2013 Nov;95(2):175-81. doi: 10.1016/j.mimet.2013.08.009. Epub 2013 Aug 30.

PMID:
23999276
[PubMed - indexed for MEDLINE]
14.

Performance Comparison of Illumina and Ion Torrent Next-Generation Sequencing Platforms for 16S rRNA-Based Bacterial Community Profiling.

Salipante SJ, Kawashima T, Rosenthal C, Hoogestraat DR, Cummings LA, Sengupta DJ, Harkins TT, Cookson BT, Hoffman NG.

Appl Environ Microbiol. 2014 Dec 15;80(24):7583-91. doi: 10.1128/AEM.02206-14. Epub 2014 Sep 26.

PMID:
25261520
[PubMed - in process]
15.

High-throughput DNA sequencing errors are reduced by orders of magnitude using circle sequencing.

Lou DI, Hussmann JA, McBee RM, Acevedo A, Andino R, Press WH, Sawyer SL.

Proc Natl Acad Sci U S A. 2013 Dec 3;110(49):19872-7. doi: 10.1073/pnas.1319590110. Epub 2013 Nov 15.

PMID:
24243955
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Illumina-based analysis of microbial community diversity.

Degnan PH, Ochman H.

ISME J. 2012 Jan;6(1):183-94. doi: 10.1038/ismej.2011.74. Epub 2011 Jun 16.

PMID:
21677692
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Reducing the effects of PCR amplification and sequencing artifacts on 16S rRNA-based studies.

Schloss PD, Gevers D, Westcott SL.

PLoS One. 2011;6(12):e27310. doi: 10.1371/journal.pone.0027310. Epub 2011 Dec 14.

PMID:
22194782
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Analysis of the cystic fibrosis lung microbiota via serial Illumina sequencing of bacterial 16S rRNA hypervariable regions.

Maughan H, Wang PW, Diaz Caballero J, Fung P, Gong Y, Donaldson SL, Yuan L, Keshavjee S, Zhang Y, Yau YC, Waters VJ, Tullis DE, Hwang DM, Guttman DS.

PLoS One. 2012;7(10):e45791. doi: 10.1371/journal.pone.0045791. Epub 2012 Oct 2.

PMID:
23056217
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

BIPES, a cost-effective high-throughput method for assessing microbial diversity.

Zhou HW, Li DF, Tam NF, Jiang XT, Zhang H, Sheng HF, Qin J, Liu X, Zou F.

ISME J. 2011 Apr;5(4):741-9. doi: 10.1038/ismej.2010.160. Epub 2010 Oct 21.

PMID:
20962877
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Profiling of the metabolically active community from a production-scale biogas plant by means of high-throughput metatranscriptome sequencing.

Zakrzewski M, Goesmann A, Jaenicke S, Jünemann S, Eikmeyer F, Szczepanowski R, Al-Soud WA, Sørensen S, Pühler A, Schlüter A.

J Biotechnol. 2012 Apr 30;158(4):248-58. doi: 10.1016/j.jbiotec.2012.01.020. Epub 2012 Feb 8.

PMID:
22342600
[PubMed - indexed for MEDLINE]

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