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Naïve Bayesian Classifier for Rapid Assignment of rRNA Sequences into the New Bacterial Taxonomy
- Qiong Wang, G. Garrity, J. Tiedje, J. Cole
- BiologyApplied and Environmental Microbiology
- 22 June 2007
The RDP Classifier can rapidly and accurately classify bacterial 16S rRNA sequences into the new higher-order taxonomy proposed in Bergey's Taxonomic Outline of the Prokaryotes, and the majority of the classification errors appear to be due to anomalies in the current taxonomies.
The Ribosomal Database Project: improved alignments and new tools for rRNA analysis
An improved alignment strategy uses the Infernal secondary structure aware aligner to provide a more consistent higher quality alignment and faster processing of user sequences, and a new Pyrosequencing Pipeline that provides tools to support analysis of ultra high-throughput rRNA sequencing data.
Bergey’s Manual® of Systematic Bacteriology
- G. Garrity
- BiologySpringer New York
This poster presents a poster presented at the 61st Annual Meeting of the American Society for Microbiology, Washington, USA, presenting a poster entitled “Microbes of the 21st Century: Foundations of Microbiology: Towards a Post-Modern Approach”.
The Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis
The Ribosomal Database Project (RDP-II) provides the research community with aligned and annotated rRNA gene sequences, along with analysis services and a phylogenetically consistent taxonomic…
The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy
The Ribosomal Database Project-II (RDP-II) pro-vides data, tools and services related to ribosomal RNA sequences to the research community and debuts a new regularly updated alignment of over 50 000 annotated (eu)bacterial sequences.
The RDP-II (Ribosomal Database Project)
The Ribosomal Database Project (RDP-II), previously described by Maidak et al. (2000), continued during the past year to add new rRNA sequences to the aligned data and to improve the analysis commands.
Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology.
- E. Stackebrandt, W. Frederiksen, W. Whitman
- Environmental ScienceInternational journal of systematic and…
- 1 May 2002
An ad hoc committee for the re-evaluation of the species definition in bacteriology met in Gent, Belgium, in February 2002. The committee made various recommendations regarding the species definition…
The ribosomal database project (RDP-II): introducing myRDP space and quality controlled public data
Quality analysis, including chimera detection, for all available rRNA sequences and the introduction of myRDP Space, a new web component designed to help researchers place their own data in context with the RDP's data are introduced.
A new version of the RDP (Ribosomal Database Project)
The Ribosomal Database Project (RDP-II), previously described by Maidak et al. (1997), is now hosted by the Center for Microbial Ecology at Michigan State University and will provide more rapid updating of data, better data accuracy and increased user access.
The Road Map to the Manual
The Second Edition of Bergey 's Manual of Systematic Bacteriology represents a major departure from the First Edition, in that the organization of content follows a phylogenetic framework, based on analysis of the nucleotide sequence of the ribosomal small subunit RNA, rather than a phenotypie structure.