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
. 2003 Jul 1;31(13):3723-6.
doi: 10.1093/nar/gkg590.

AMIGene: Annotation of MIcrobial Genes

Stéphanie Bocs  1 , Stéphane Cruveiller, David Vallenet, Grégory Nuel, Claudine Médigue
Affiliations

AMIGene: Annotation of MIcrobial Genes

Stéphanie Bocs et al. Nucleic Acids Res. .

Abstract

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@genoscope.cns.fr).

PubMed Disclaimer

Similar articles

See all similar articles

Cited by

See all "Cited by" articles

References

    1. Borodovsky M. and McIninch,J.D. (1993) GeneMark: parallel gene recognition for both DNA strands. Comp. Chem., 17, 123–133.
    1. Salzberg S.L., Delcher,A.L., Kasif,S. and White,O. (1998) Microbial gene identification using interpolated Markov models. Nucleic Acids Res., 26, 544–548. - PMC - PubMed
    1. Médigue C., Rechenmann,F., Danchin,A. and Viari,A. (1999) Imagene: an integrated computer environment for sequence annotation and analysis. Bioinformatics, 15, 2–15. - PubMed
    1. Médigue C., Wong,B.C.Y., Lin,M.C.M., Gu,Q., Bocs,S. and Danchin,A. (2002) The secE gene of Helicobacter pylori. J. Bacteriol., 184, 2837–2840. - PMC - PubMed
    1. Bocs S., Danchin,A. and Médigue,C. (2002) Re-annotation of genomes microbial CoDing Sequences: finding new genes and inaccurately annotated genes. BMC Bioinformatics, 3, 5. - PMC - PubMed

Publication types