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Items: 1 to 20 of 47

1.

COVER: a priori estimation of coverage for metagenomic sequencing.

Tamames J, de la Peña S, de Lorenzo V.

Environ Microbiol Rep. 2012 Jun;4(3):335-41. doi: 10.1111/j.1758-2229.2012.00338.x. Epub 2012 Apr 17.

PMID:
23760797
2.

How much metagenomic sequencing is enough to achieve a given goal?

Ni J, Yan Q, Yu Y.

Sci Rep. 2013;3:1968. doi: 10.1038/srep01968.

3.

Microbial diversity of an anoxic zone of a hydroelectric power station reservoir in Brazilian Amazonia.

Graças DA, Miranda PR, Baraúna RA, McCulloch JA, Ghilardi R Jr, Schneider MP, Silva A.

Microb Ecol. 2011 Nov;62(4):853-61. doi: 10.1007/s00248-011-9906-8. Epub 2011 Jul 14.

PMID:
21755290
4.

Separating metagenomic short reads into genomes via clustering.

Tanaseichuk O, Borneman J, Jiang T.

Algorithms Mol Biol. 2012 Sep 26;7(1):27. doi: 10.1186/1748-7188-7-27.

5.
6.

Comparison of species richness estimates obtained using nearly complete fragments and simulated pyrosequencing-generated fragments in 16S rRNA gene-based environmental surveys.

Youssef N, Sheik CS, Krumholz LR, Najar FZ, Roe BA, Elshahed MS.

Appl Environ Microbiol. 2009 Aug;75(16):5227-36. doi: 10.1128/AEM.00592-09. Epub 2009 Jun 26.

8.

Estimating DNA coverage and abundance in metagenomes using a gamma approximation.

Hooper SD, Dalevi D, Pati A, Mavromatis K, Ivanova NN, Kyrpides NC.

Bioinformatics. 2010 Feb 1;26(3):295-301. doi: 10.1093/bioinformatics/btp687. Epub 2009 Dec 14.

9.

ProViDE: A software tool for accurate estimation of viral diversity in metagenomic samples.

Ghosh TS, Mohammed MH, Komanduri D, Mande SS.

Bioinformation. 2011 Mar 26;6(2):91-4.

10.

Toward a census of bacteria in soil.

Schloss PD, Handelsman J.

PLoS Comput Biol. 2006 Jul 21;2(7):e92. Epub 2006 Jun 5.

11.

Low sequencing efforts bias analyses of shared taxa in microbial communities.

Lemos LN, Fulthorpe RR, Roesch LF.

Folia Microbiol (Praha). 2012 Sep;57(5):409-13. doi: 10.1007/s12223-012-0155-0. Epub 2012 May 5.

PMID:
22562492
12.

A combined sequence-based and fragment-based characterization of microbial eukaryote assemblages provides taxonomic context for the Terminal Restriction Fragment Length Polymorphism (T-RFLP) method.

Kim DY, Countway PD, Yamashita W, Caron DA.

J Microbiol Methods. 2012 Dec;91(3):527-36. doi: 10.1016/j.mimet.2012.09.026. Epub 2012 Oct 3.

PMID:
23041269
13.

MALINA: a web service for visual analytics of human gut microbiota whole-genome metagenomic reads.

Tyakht AV, Popenko AS, Belenikin MS, Altukhov IA, Pavlenko AV, Kostryukova ES, Selezneva OV, Larin AK, Karpova IY, Alexeev DG.

Source Code Biol Med. 2012 Dec 7;7(1):13. doi: 10.1186/1751-0473-7-13.

14.

Gene prediction in metagenomic fragments: a large scale machine learning approach.

Hoff KJ, Tech M, Lingner T, Daniel R, Morgenstern B, Meinicke P.

BMC Bioinformatics. 2008 Apr 28;9:217. doi: 10.1186/1471-2105-9-217.

15.

[Diversity of 16S rRNA genes in metagenomic community of the freshwater sponge Lubomirskia baicalensis].

Kaliuzhnaia OV, Krivich AA, Itskovich VB.

Genetika. 2012 Aug;48(8):1003-6. Russian.

PMID:
23035553
16.

Bacterial diversity in the rumen of Indian Surti buffalo (Bubalus bubalis), assessed by 16S rDNA analysis.

Pandya PR, Singh KM, Parnerkar S, Tripathi AK, Mehta HH, Rank DN, Kothari RK, Joshi CG.

J Appl Genet. 2010;51(3):395-402. doi: 10.1007/BF03208869.

PMID:
20720314
17.

Evaluation of different partial 16S rRNA gene sequence regions for phylogenetic analysis of microbiomes.

Kim M, Morrison M, Yu Z.

J Microbiol Methods. 2011 Jan;84(1):81-7. doi: 10.1016/j.mimet.2010.10.020. Epub 2010 Oct 31.

PMID:
21047533
18.
19.

Divide and conquer: enriching environmental sequencing data.

Bergeron A, Belcaid M, Steward GF, Poisson G.

PLoS One. 2007 Sep 5;2(9):e830.

20.

Towards the human intestinal microbiota phylogenetic core.

Tap J, Mondot S, Levenez F, Pelletier E, Caron C, Furet JP, Ugarte E, Muñoz-Tamayo R, Paslier DL, Nalin R, Dore J, Leclerc M.

Environ Microbiol. 2009 Oct;11(10):2574-84. doi: 10.1111/j.1462-2920.2009.01982.x. Epub 2009 Jul 6.

PMID:
19601958
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