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Items: 1 to 20 of 22

1.

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.

2.

Barcoded primers used in multiplex amplicon pyrosequencing bias amplification.

Berry D, Ben Mahfoudh K, Wagner M, Loy A.

Appl Environ Microbiol. 2011 Nov;77(21):7846-9. doi: 10.1128/AEM.05220-11. Erratum in: Appl Environ Microbiol. 2012 Jan;78(2):612.

3.

The Interlaboratory RObustness of Next-generation sequencing (IRON) study: a deep sequencing investigation of TET2, CBL and KRAS mutations by an international consortium involving 10 laboratories.

Kohlmann A, Klein HU, Weissmann S, Bresolin S, Chaplin T, Cuppens H, Haschke-Becher E, Garicochea B, Grossmann V, Hanczaruk B, Hebestreit K, Gabriel C, Iacobucci I, Jansen JH, te Kronnie G, van de Locht L, Martinelli G, McGowan K, Schweiger MR, Timmermann B, Vandenberghe P, Young BD, Dugas M, Haferlach T.

Leukemia. 2011 Dec;25(12):1840-8. doi: 10.1038/leu.2011.155.

PMID:
21681191
4.

The evolution of Pyrosequencing® for microbiology: From genes to genomes.

Novais RC, Thorstenson YR.

J Microbiol Methods. 2011 Jul;86(1):1-7. doi: 10.1016/j.mimet.2011.04.006. Review.

PMID:
21514329
5.

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. Erratum in: Appl Environ Microbiol. 2011 Aug;77(15):5569.

6.

Mangrove bacterial diversity and the impact of oil contamination revealed by pyrosequencing: bacterial proxies for oil pollution.

dos Santos HF, Cury JC, do Carmo FL, dos Santos AL, Tiedje J, van Elsas JD, Rosado AS, Peixoto RS.

PLoS One. 2011 Mar 2;6(3):e16943. doi: 10.1371/journal.pone.0016943.

7.

Electron acceptor-dependent identification of key anaerobic toluene degraders at a tar-oil-contaminated aquifer by Pyro-SIP.

Pilloni G, von Netzer F, Engel M, Lueders T.

FEMS Microbiol Ecol. 2011 Oct;78(1):165-75. doi: 10.1111/j.1574-6941.2011.01083.x.

8.

Reproducibility and quantitation of amplicon sequencing-based detection.

Zhou J, Wu L, Deng Y, Zhi X, Jiang YH, Tu Q, Xie J, Van Nostrand JD, He Z, Yang Y.

ISME J. 2011 Aug;5(8):1303-13. doi: 10.1038/ismej.2011.11.

9.

Replicate or lie.

Prosser JI.

Environ Microbiol. 2010 Jul;12(7):1806-10. doi: 10.1111/j.1462-2920.2010.02201.x. Review. No abstract available.

PMID:
20438583
10.

Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates.

Kunin V, Engelbrektson A, Ochman H, Hugenholtz P.

Environ Microbiol. 2010 Jan;12(1):118-23. doi: 10.1111/j.1462-2920.2009.02051.x.

PMID:
19725865
11.

Metagenomic pyrosequencing and microbial identification.

Petrosino JF, Highlander S, Luna RA, Gibbs RA, Versalovic J.

Clin Chem. 2009 May;55(5):856-66. doi: 10.1373/clinchem.2008.107565. Review.

12.

The Ribosomal Database Project: improved alignments and new tools for rRNA analysis.

Cole JR, Wang Q, Cardenas E, Fish J, Chai B, Farris RJ, Kulam-Syed-Mohideen AS, McGarrell DM, Marsh T, Garrity GM, Tiedje JM.

Nucleic Acids Res. 2009 Jan;37(Database issue):D141-5. doi: 10.1093/nar/gkn879.

13.

TRiFLe, a program for in silico terminal restriction fragment length polymorphism analysis with user-defined sequence sets.

Junier P, Junier T, Witzel KP.

Appl Environ Microbiol. 2008 Oct;74(20):6452-6. doi: 10.1128/AEM.01394-08.

14.

How to get more out of molecular fingerprints: practical tools for microbial ecology.

Marzorati M, Wittebolle L, Boon N, Daffonchio D, Verstraete W.

Environ Microbiol. 2008 Jun;10(6):1571-81. doi: 10.1111/j.1462-2920.2008.01572.x.

PMID:
18331337
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17.

A pyrosequencing-tailored nucleotide barcode design unveils opportunities for large-scale sample multiplexing.

Parameswaran P, Jalili R, Tao L, Shokralla S, Gharizadeh B, Ronaghi M, Fire AZ.

Nucleic Acids Res. 2007;35(19):e130.

18.

Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy.

Wang Q, Garrity GM, Tiedje JM, Cole JR.

Appl Environ Microbiol. 2007 Aug;73(16):5261-7.

19.

Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB.

DeSantis TZ, Hugenholtz P, Larsen N, Rojas M, Brodie EL, Keller K, Huber T, Dalevi D, Hu P, Andersen GL.

Appl Environ Microbiol. 2006 Jul;72(7):5069-72.

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