Nucleic Acids Research, 2003, Vol. 31, No. 13 3723-3726
© 2003 Oxford University Press
AMIGene: Annotation of MIcrobial Genes
Génoscope/UMR-CNRS 8030, Atelier de Génomique Comparative, 2 rue Gaston Crémieux, F-91006 Evry 1 Laboratoire Statistique et Génomes, UMR-CNRS 8071, Tour Evry2, 523 place des terrasses de l'Agora, F-91034 Evry, France
*To whom correspondence should be addressed. Tel: +33 1 60 87 84 59; Fax: +33 1 60 87 25 14; Email: cmedigue{at}genoscope.cns.fr
AMIGene (Annotation of MIcrobial Genes) is an application for automatically identifying the most likely coding sequences (CDSs) in a large contig or a complete bacterial genome sequence. The first step in AMIGene is dedicated to the construction of Markov models that fit the input genomic data (i.e. the gene model), followed by the combination of well-known gene-finding methods and an heuristic approach for the selection of the most likely CDSs. The web interface allows the user to select one or several gene models applied to the analysis of the input sequence by the AMIGene program and to visualize the list of predicted CDSs graphically and in a downloadable text format. The AMIGene web site is accessible at the following address: http://www.genoscope.cns.fr/agc/tools/amigene/index.html (Contact: sbocs{at}genoscope.cns.fr).
CiteULike 
Connotea 
Del.icio.us What's this?
This article has been cited by other articles:
|
|
 |
|
  C. Amadou, G. Pascal, S. Mangenot, M. Glew, C. Bontemps, D. Capela, S. Carrere, S. Cruveiller, C. Dossat, A. Lajus, et al. Genome sequence of the {beta}-rhizobium Cupriavidus taiwanensis and comparative genomics of rhizobia Genome Res., September 1, 2008; 18(9): 1472 - 1483. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 E. Pelletier, A. Kreimeyer, S. Bocs, Z. Rouy, G. Gyapay, R. Chouari, D. Riviere, A. Ganesan, P. Daegelen, A. Sghir, et al. "Candidatus Cloacamonas Acidaminovorans": Genome Sequence Reconstruction Provides a First Glimpse of a New Bacterial Division J. Bacteriol., April 1, 2008; 190(7): 2572 - 2579. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. Plainvert, P. Bidet, C. Peigne, V. Barbe, C. Medigue, E. Denamur, E. Bingen, and S. Bonacorsi A New O-Antigen Gene Cluster Has a Key Role in the Virulence of the Escherichia coli Meningitis Clone O45:K1:H7 J. Bacteriol., December 1, 2007; 189(23): 8528 - 8536. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 G. W. Jones, C. Nielsen-Leroux, Y. Yang, Z. Yuan, V. F. Dumas, R. Gomes Monnerat, and C. Berry A new Cry toxin with a unique two-component dependency from Bacillus sphaericus FASEB J, December 1, 2007; 21(14): 4112 - 4120. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 J. Xiong, C. E. Bauer, and A. Pancholy Insight into the haem d1 biosynthesis pathway in heliobacteria through bioinformatics analysis Microbiology, October 1, 2007; 153(10): 3548 - 3562. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 P. Bourhy, L. Salaun, A. Lajus, C. Medigue, C. Boursaux-Eude, and M. Picardeau A Genomic Island of the Pathogen Leptospira interrogans Serovar Lai Can Excise from Its Chromosome Infect. Immun., February 1, 2007; 75(2): 677 - 683. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. Normand, P. Lapierre, L. S. Tisa, J. P. Gogarten, N. Alloisio, E. Bagnarol, C. A. Bassi, A. M. Berry, D. M. Bickhart, N. Choisne, et al. Genome characteristics of facultatively symbiotic Frankia sp. strains reflect host range and host plant biogeography Genome Res., January 1, 2007; 17(1): 7 - 15. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
H. Louvel, S. Bommezzadri, N. Zidane, C. Boursaux-Eude, S. Creno, A. Magnier, Z. Rouy, C. Medigue, I. S. Girons, C. Bouchier, et al. Comparative and Functional Genomic Analyses of Iron Transport and Regulation in Leptospira spp. J. Bacteriol., November 15, 2006; 188(22): 7893 - 7904. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 C. Verdet, Y. Benzerara, V. Gautier, O. Adam, Z. Ould-Hocine, and G. Arlet Emergence of DHA-1-Producing Klebsiella spp. in the Parisian Region: Genetic Organization of the ampC and ampR Genes Originating from Morganella morganii Antimicrob. Agents Chemother., February 1, 2006; 50(2): 607 - 617. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 D. Vallenet, L. Labarre, Z. Rouy, V. Barbe, S. Bocs, S. Cruveiller, A. Lajus, G. Pascal, C. Scarpelli, and C. Medigue MaGe: a microbial genome annotation system supported by synteny results Nucleic Acids Res., January 10, 2006; 34(1): 53 - 65. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
F. L. Poole II, B. A. Gerwe, R. C. Hopkins, G. J. Schut, M. V. Weinberg, F. E. Jenney Jr., and M. W. W. Adams Defining Genes in the Genome of the Hyperthermophilic Archaeon Pyrococcus furiosus: Implications for All Microbial Genomes J. Bacteriol., November 1, 2005; 187(21): 7325 - 7332. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. Medigue, E. Krin, G. Pascal, V. Barbe, A. Bernsel, P. N. Bertin, F. Cheung, S. Cruveiller, S. D'Amico, A. Duilio, et al. Coping with cold: The genome of the versatile marine Antarctica bacterium Pseudoalteromonas haloplanktis TAC125 Genome Res., October 1, 2005; 15(10): 1325 - 1335. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Cruveiller, J. Le Saux, D. Vallenet, A. Lajus, S. Bocs, and C. Medigue MICheck: a web tool for fast checking of syntactic annotations of bacterial genomes Nucleic Acids Res., July 1, 2005; 33(suppl_2): W471 - W479. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
V. Barbe, D. Vallenet, N. Fonknechten, A. Kreimeyer, S. Oztas, L. Labarre, S. Cruveiller, C. Robert, S. Duprat, P. Wincker, et al. Unique features revealed by the genome sequence of Acinetobacter sp. ADP1, a versatile and naturally transformation competent bacterium Nucleic Acids Res., October 28, 2004; 32(19): 5766 - 5779. [Abstract] [Full Text] [PDF]
|
|