Unraveling the outcome of 16S rDNA-based taxonomy analysis through mock data and simulations (Q30755503)

26 June 2017

Unraveling the outcome of 16S rDNA-based taxonomy analysis through mock data and simulations (English)

1 reference

26 June 2017

2

Sanne Abeln

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Jaap Heringa

4

object named as

Jaap Heringa

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26 June 2017

Ali May

1

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26 June 2017

Sanne Abeln

2

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26 June 2017

Wim Crielaard

3

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26 June 2017

Bernd W Brandt

5

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26 June 2017

language of work or name

English

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publication date

10 February 2014

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26 June 2017

9

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based on heuristic

inferred from page(s)

published in

Bioinformatics

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26 June 2017

30

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26 June 2017

11

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26 June 2017

1530-1538

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Basic local alignment search tool

26 June 2017

1 reference

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Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

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Grinder: a versatile amplicon and shotgun sequence simulator

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Implications of pyrosequencing error correction for biological data interpretation

21 January 2018

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Characteristics of 454 pyrosequencing data--enabling realistic simulation with flowsim

21 January 2018

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Comparing clustering and pre-processing in taxonomy analysis

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1 reference

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TaxMan: a server to trim rRNA reference databases and inspect taxonomic coverage

21 January 2018

1 reference

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ESPRIT-Tree: hierarchical clustering analysis of millions of 16S rRNA pyrosequences in quasilinear computational time

21 January 2018

1 reference

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QIIME allows analysis of high-throughput community sequencing data

21 January 2018

1 reference

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Exploring the oral microbiota of children at various developmental stages of their dentition in the relation to their oral health

21 January 2018

1 reference

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

21 January 2018

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Search and clustering orders of magnitude faster than BLAST

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UCHIME improves sensitivity and speed of chimera detection

21 January 2018

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Assessing the consequences of denoising marker-based metagenomic data

21 January 2018

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DNACLUST: accurate and efficient clustering of phylogenetic marker genes

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Accuracy and quality assessment of 454 GS-FLX Titanium pyrosequencing.

21 January 2018

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CORE: a phylogenetically-curated 16S rDNA database of the core oral microbiome

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Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons

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Clustering 16S rRNA for OTU prediction: a method of unsupervised Bayesian clustering

21 January 2018

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V-Xtractor: an open-source, high-throughput software tool to identify and extract hypervariable regions of small subunit (16S/18S) ribosomal RNA gene sequences

21 January 2018

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Significant and persistent impact of timber harvesting on soil microbial communities in Northern coniferous forests

21 January 2018

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Chimeric 16S rDNA sequences of diverse origin are accumulating in the public databases

21 January 2018

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Ironing out the wrinkles in the rare biosphere through improved OTU clustering

21 January 2018

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CLUSTOM: a novel method for clustering 16S rRNA next generation sequences by overlap minimization

21 January 2018

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Incorporating 16S gene copy number information improves estimates of microbial diversity and abundance

21 January 2018

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The structure of bacterial communities in the western Arctic Ocean as revealed by pyrosequencing of 16S rRNA genes

21 January 2018

1 reference

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Simultaneous amplicon sequencing to explore co-occurrence patterns of bacterial, archaeal and eukaryotic microorganisms in rumen microbial communities

21 January 2018

1 reference

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Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies

21 January 2018

1 reference

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The relation between oral Candida load and bacterial microbiome profiles in Dutch older adults

21 January 2018

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

21 January 2018

1 reference

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Richness of human gut microbiome correlates with metabolic markers

21 January 2018

1 reference

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TBC: a clustering algorithm based on prokaryotic taxonomy.

21 January 2018

1 reference

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Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences

21 January 2018

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An efficient simulator of 454 data using configurable statistical models

21 January 2018

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The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

21 January 2018

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Removing noise from pyrosequenced amplicons

21 January 2018

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Rapidly denoising pyrosequencing amplicon reads by exploiting rank-abundance distributions

21 January 2018

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EMBOSS: the European Molecular Biology Open Software Suite

21 January 2018

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MetaSim: a sequencing simulator for genomics and metagenomics

21 January 2018

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Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities

21 January 2018

1 reference

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

21 January 2018

1 reference

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High-throughput sequencing of 16S rRNA gene amplicons: effects of extraction procedure, primer length and annealing temperature

21 January 2018

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Pyrosequencing as a tool for better understanding of human microbiomes

21 January 2018

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A large-scale benchmark study of existing algorithms for taxonomy-independent microbial community analysis

21 January 2018

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Analysis of 16S rRNA amplicon sequencing options on the Roche/454 next-generation titanium sequencing platform

21 January 2018

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M-pick, a modularity-based method for OTU picking of 16S rRNA sequences

21 January 2018

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Alignment and clustering of phylogenetic markers--implications for microbial diversity studies

21 January 2018

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Then and now: use of 16S rDNA gene sequencing for bacterial identification and discovery of novel bacteria in clinical microbiology laboratories.

21 January 2018

1 reference

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10.1093/BIOINFORMATICS/BTU085

21 January 2018

Identifiers

DOI

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journals/bioinformatics/MayACHB14

26 June 2017

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference