Skip to main content
Article thumbnail
Location of Repository

JCoast – A biologist-centric software tool for data mining and comparison of prokaryotic (meta)genomes

By Michael Richter, Thierry Lombardot, Ivaylo Kostadinov, Renzo Kottmann, Melissa Beth Duhaime, Jörg Peplies and Frank Oliver Glöckner
Topics: Software
Publisher: BioMed Central
OAI identifier:
Provided by: PubMed Central
Download PDF:
Sorry, we are unable to provide the full text but you may find it at the following location(s):
  • http://www.pubmedcentral.nih.g... (external link)
  • Suggested articles


    1. A user friendly operating system [ h t t p : /
    2. (2007). A: Ecological genomics of marine Roseobacters. Appl Environ Microbiol
    3. (2003). A: GenDB – an open source genome annotation system for prokaryote genomes. Nucleic Acids Res
    4. (2007). Advanced sequencing technologies and their wider impact in microbiology.
    5. (2006). AGMIAL: implementing an annotation strategy for prokaryote genomes as a distributed system. Nucleic Acids Res
    6. (2000). Artemis: sequence visualization and annotation. Bioinformatics
    7. (2007). Bioinformatics software for biologists in the genomics era. Bioinformatics
    8. (2004). Brunak S: Improved prediction of signal peptides:
    9. (2007). CAMERA: a community resource for metagenomics. PLoS Biol
    10. (2005). CH: InterPro, progress and status in 2005. Nucleic Acids Res
    11. (2007). Characterization of a marine gammaproteobacterium capable of aerobic anoxygenic photosynthesis. Proc Natl Acad Sci USA
    12. (2007). Comparative genome analysis of four magnetotactic bacteria reveals a complex set of group-specific genes implicated in magnetosome biomineralization and function.
    13. (2004). E: Swiss-Prot: juggling between evolution and stability. Brief Bioinform
    14. (2007). Ehrlich GD: Insights into the genome of large sulfur bacteria revealed by analysis of single filaments. PLoS Biol
    15. (2004). Environmental genome shotgun sequencing of the Sargasso Sea. Science
    16. (2007). Genomorama: genome visualization and analysis.
    17. (2007). Glockner F: MetaLook: a 3D visualisation software for marine ecological genomics.
    18. (2006). Glöckner FO: – database resources for marine ecological genomics. Nucleic Acids Res
    19. (2006). Glöckner FO: Whole genome analysis of the marine Bacteroidetes'Gramella forsetii' reveals adaptations to degradation of polymeric organic matter. Environ Microbiol
    20. (2007). Ivanova NN, Kyrpides NC: The integrated microbial genomes (IMG) system in 2007: data content and analysis tool extensions. Nucleic Acids Res . Advance Access published on
    21. (1997). Lipman DJ: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res
    22. (2006). Médigue C: MaGe: a microbial genome annotation system supported by synteny results. Nucleic Acids Res
    23. (2003). Schuster SC: Complete genome sequence and analysis of Wolinella succinogenes. Proc Natl Acad Sci USA
    24. (2001). Sonnhammer EL: Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes.
    25. (2004). SR: The Pfam protein families database. Nucleic Acids Res
    26. (2007). Strainer: Software for analysis of population variation in community genomic datasets.
    27. (2003). The COG database: an updated version includes eukaryotes.
    28. The Ribocon GmbH-Bioinformatics and Molecular Diagnostics []
    29. (2007). The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic through Eastern Tropical Pacific. PLoS Biol
    30. (2006). Zeruth GT: The genome of deep-sea vent chemolithoautotroph Thiomicrospira crunogena XCL-2. PLoS Biol

    To submit an update or takedown request for this paper, please submit an Update/Correction/Removal Request.