An automated phylogenetic tree-based small subunit rRNA taxonomy and alignment pipeline (STAP). (Q33348624)

26 July 2017

An automated phylogenetic tree-based small subunit rRNA taxonomy and alignment pipeline (STAP). (English)

1 reference

26 July 2017

0 references

1 reference

4

1 reference

26 July 2017

3

Naomi Ward

1 reference

26 July 2017

Dongying Wu

1

1 reference

PubMed ID

18596968

26 July 2017

Amber Hartman

series ordinal

2

1 reference

PubMed ID

18596968

26 July 2017

language of work or name

English

0 references

publication date

2 July 2008

1 reference

26 July 2017

1 reference

26 July 2017

3

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26 July 2017

7

1 reference

26 July 2017

e2566

1 reference

Creative Commons Attribution 4.0 International

26 July 2017

start time

2 July 2008

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

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cites work

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21 June 2018

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Environmental shotgun sequencing: its potential and challenges for studying the hidden world of microbes

21 June 2018

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21 June 2018

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The ribosomal database project (RDP-II): introducing myRDP space and quality controlled public data

21 June 2018

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Use of 16S rRNA and rpoB genes as molecular markers for microbial ecology studies

21 June 2018

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Metagenomic analysis of two enhanced biological phosphorus removal (EBPR) sludge communities

21 June 2018

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Microbial diversity in the deep sea and the underexplored "rare biosphere"

21 June 2018

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NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes

21 June 2018

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

21 June 2018

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Characterization of bacterial communities associated with deep-sea corals on Gulf of Alaska seamounts

21 June 2018

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UniFrac: a new phylogenetic method for comparing microbial communities

21 June 2018

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A likelihood ratio test for species membership based on DNA sequence data

21 June 2018

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Opinion: Re-evaluating prokaryotic species

21 June 2018

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Diversity of the human intestinal microbial flora

21 June 2018

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Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness

21 June 2018

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21 June 2018

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Environmental genome shotgun sequencing of the Sargasso Sea

21 June 2018

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ARB: a software environment for sequence data

21 June 2018

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Community structure and metabolism through reconstruction of microbial genomes from the environment

21 June 2018

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The European ribosomal RNA database

21 June 2018

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Review and re-analysis of domain-specific 16S primers

21 June 2018

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A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood

21 June 2018

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BIBI, a bioinformatics bacterial identification tool

21 June 2018

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The Bioperl toolkit: Perl modules for the life sciences

21 June 2018

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High-density microarray of small-subunit ribosomal DNA probes

21 June 2018

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Counting the uncountable: statistical approaches to estimating microbial diversity

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2432038

The Deinococcus-Thermus phylum and the effect of rRNA composition on phylogenetic tree construction.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2432038

The Sequence of the Human Genome

21 June 2018

1 reference

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Horizontal gene transfer among microbial genomes: new insights from complete genome analysis

21 June 2018

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A phylogenomic study of DNA repair genes, proteins, and processes

21 June 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2432038

Automated approach for ribosomal intergenic spacer analysis of microbial diversity and its application to freshwater bacterial communities.

21 June 2018

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Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2432038

Phylogenomics: improving functional predictions for uncharacterized genes by evolutionary analysis

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2432038

The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2432038

Characterization of microbial diversity by determining terminal restriction fragment length polymorphisms of genes encoding 16S rRNA.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2432038

A molecular view of microbial diversity and the biosphere

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2432038

Polyphasic taxonomy, a consensus approach to bacterial systematics

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2432038

CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2432038

The characterization of enzymatically amplified eukaryotic 16S-like rRNA-coding regions

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2432038

Rapid determination of 16S ribosomal RNA sequences for phylogenetic analyses

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2432038

16S ribosomal DNA amplification for phylogenetic study

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2432038

Phylogenetic structure of the prokaryotic domain: The primary kingdoms

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2432038

Application of denaturing gradient gel electrophoresis (DGGE) and temperature gradient gel electrophoresis (TGGE) in microbial ecology.

21 June 2018

1 reference

Crossref

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0002566

The closest BLAST hit is often not the nearest neighbor.

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0002566

10.1371/JOURNAL.PONE.0002566

21 January 2018

Identifiers

DOI

1 reference

26 July 2017

0 references

1 reference

26 July 2017

1 reference

PubMed ID

18596968