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Results: 1 to 20 of 131

Similar articles for PubMed (Select 17255551)

1.

MEGAN analysis of metagenomic data.

Huson DH, Auch AF, Qi J, Schuster SC.

Genome Res. 2007 Mar;17(3):377-86. Epub 2007 Jan 25.

2.

Methods for comparative metagenomics.

Huson DH, Richter DC, Mitra S, Auch AF, Schuster SC.

BMC Bioinformatics. 2009 Jan 30;10 Suppl 1:S12. doi: 10.1186/1471-2105-10-S1-S12.

3.

Short clones or long clones? A simulation study on the use of paired reads in metagenomics.

Mitra S, Schubach M, Huson DH.

BMC Bioinformatics. 2010 Jan 18;11 Suppl 1:S12. doi: 10.1186/1471-2105-11-S1-S12.

4.

Use of simulated data sets to evaluate the fidelity of metagenomic processing methods.

Mavromatis K, Ivanova N, Barry K, Shapiro H, Goltsman E, McHardy AC, Rigoutsos I, Salamov A, Korzeniewski F, Land M, Lapidus A, Grigoriev I, Richardson P, Hugenholtz P, Kyrpides NC.

Nat Methods. 2007 Jun;4(6):495-500. Epub 2007 Apr 29.

PMID:
17468765
5.

Metagenomics: read length matters.

Wommack KE, Bhavsar J, Ravel J.

Appl Environ Microbiol. 2008 Mar;74(5):1453-63. doi: 10.1128/AEM.02181-07. Epub 2008 Jan 11.

6.

Analysis of 16S rRNA environmental sequences using MEGAN.

Mitra S, Stärk M, Huson DH.

BMC Genomics. 2011 Nov 30;12 Suppl 3:S17. doi: 10.1186/1471-2164-12-S3-S17. Epub 2011 Nov 30.

7.

Assessment of metagenomic assembly using simulated next generation sequencing data.

Mende DR, Waller AS, Sunagawa S, Järvelin AI, Chan MM, Arumugam M, Raes J, Bork P.

PLoS One. 2012;7(2):e31386. doi: 10.1371/journal.pone.0031386. Epub 2012 Feb 23.

8.

Comparison of metagenomic samples using sequence signatures.

Jiang B, Song K, Ren J, Deng M, Sun F, Zhang X.

BMC Genomics. 2012 Dec 27;13:730. doi: 10.1186/1471-2164-13-730.

9.

Environmental genome shotgun sequencing of the Sargasso Sea.

Venter JC, Remington K, Heidelberg JF, Halpern AL, Rusch D, Eisen JA, Wu D, Paulsen I, Nelson KE, Nelson W, Fouts DE, Levy S, Knap AH, Lomas MW, Nealson K, White O, Peterson J, Hoffman J, Parsons R, Baden-Tillson H, Pfannkoch C, Rogers YH, Smith HO.

Science. 2004 Apr 2;304(5667):66-74. Epub 2004 Mar 4.

10.

An ORFome assembly approach to metagenomics sequences analysis.

Ye Y, Tang H.

Comput Syst Bioinformatics Conf. 2008;7:3-13.

11.

SOrt-ITEMS: Sequence orthology based approach for improved taxonomic estimation of metagenomic sequences.

Monzoorul Haque M, Ghosh TS, Komanduri D, Mande SS.

Bioinformatics. 2009 Jul 15;25(14):1722-30. doi: 10.1093/bioinformatics/btp317. Epub 2009 May 13.

12.

Estimating the extent of horizontal gene transfer in metagenomic sequences.

Tamames J, Moya A.

BMC Genomics. 2008 Mar 24;9:136. doi: 10.1186/1471-2164-9-136.

13.

MetaSim: a sequencing simulator for genomics and metagenomics.

Richter DC, Ott F, Auch AF, Schmid R, Huson DH.

PLoS One. 2008 Oct 8;3(10):e3373. doi: 10.1371/journal.pone.0003373.

14.

OrthoSelect: a protocol for selecting orthologous groups in phylogenomics.

Schreiber F, Pick K, Erpenbeck D, Wörheide G, Morgenstern B.

BMC Bioinformatics. 2009 Jul 16;10:219. doi: 10.1186/1471-2105-10-219.

15.

A statistical framework for accurate taxonomic assignment of metagenomic sequencing reads.

Jiang H, An L, Lin SM, Feng G, Qiu Y.

PLoS One. 2012;7(10):e46450. doi: 10.1371/journal.pone.0046450. Epub 2012 Oct 1. Erratum in: PLoS One. 2013;8(5). doi:10.1371/annotation/c08da7e7-60fe-4f7d-a457-299bf9f24148.

16.

Rapid phylogenetic and functional classification of short genomic fragments with signature peptides.

Berendzen J, Bruno WJ, Cohn JD, Hengartner NW, Kuske CR, McMahon BH, Wolinsky MA, Xie G.

BMC Res Notes. 2012 Aug 28;5:460. doi: 10.1186/1756-0500-5-460.

17.

The phylogenetic diversity of metagenomes.

Kembel SW, Eisen JA, Pollard KS, Green JL.

PLoS One. 2011;6(8):e23214. doi: 10.1371/journal.pone.0023214. Epub 2011 Aug 31.

18.

Get the most out of your metagenome: computational analysis of environmental sequence data.

Raes J, Foerstner KU, Bork P.

Curr Opin Microbiol. 2007 Oct;10(5):490-8. Epub 2007 Oct 23. Review.

PMID:
17936679
19.

ShotgunFunctionalizeR: an R-package for functional comparison of metagenomes.

Kristiansson E, Hugenholtz P, Dalevi D.

Bioinformatics. 2009 Oct 15;25(20):2737-8. doi: 10.1093/bioinformatics/btp508. Epub 2009 Aug 20.

20.

Application of suppressive subtractive hybridization to uncover the metagenomic diversity of environmental samples.

Galbraith EA, Antonopoulos DA, White BA.

Methods Mol Biol. 2008;410:295-333.

PMID:
18642606
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