Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2005 Jan 1;33(Database issue):D294-6.
doi: 10.1093/nar/gki038.

The Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis

J R Cole  1 , B Chai, R J Farris, Q Wang, S A Kulam, D M McGarrell, G M Garrity, J M Tiedje
Affiliations

The Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis

J R Cole et al. Nucleic Acids Res. .

Abstract

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 framework for these data. Updated monthly, these services are made available through the RDP-II website (http://rdp.cme.msu.edu/). RDP-II release 9.21 (August 2004) contains 101,632 bacterial small subunit rRNA gene sequences in aligned and annotated format. High-throughput tools for initial taxonomic placement, identification of related sequences, probe and primer testing, data navigation and subalignment download are provided. The RDP-II email address for questions or comments is rdpstaff@msu.edu.

PubMed Disclaimer

References

    1. Cole J.R., Chai,B., Marsh,T.L., Farris,R.J., Wang,Q., Kulam,S.A., Chandra,S., McGarrell,D.M., Schmidt,T.M., Garrity,G.M. et al. (2003) The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy. Nucleic Acids Res., 31, 442–443. - PMC - PubMed
    1. Brown M.P.S. (2000) Small subunit ribosomal RNA modeling using stochastic context-free grammar. In: Proceedings of the 8th International Conference on Intelligent Systems for Molecular Biology (ISMB 2000), San Diego, CA, pp. 57–66. - PubMed
    1. Cannone J.J., Subramanian,S., Schnare,M.N., Collett,J.R., D'Souza,L.M., Du,Y., Feng,B., Lin,N., Madabusi,L.V., Muller,K.M. et al. (2002) The Comparative RNA Web (CRW) Site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs. BioMed. Central Bioinformatics, 3, 2. - PMC - PubMed
    1. Garrity G.M., Bell,J.A. and Lilburn,T.G. (2004) Taxonomic Outline of the Prokaryotes. Bergey's Manual of Systematic Bacteriology, 2nd edn. Release 5.0, May 2004. Springer-Verlag, NY.
    1. Wheeler D.L., Chappey,C., Lash,A.E., Leipe,D.D., Madden,T.L., Schuler,G.D., Tatusova,T.A. and Rapp,B.A. (2000) Database resources of the National Center for Biotechnology Information. Nucleic Acids Res., 28, 10–14. - PMC - PubMed

Publication types