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Theses

(Ré)annotation de génomes procaryotes complets - Exploration de groupes de gènes chez les bactéries

Abstract : The semi-automatic expert strategy for predicting CoDing Sequence (CDS) on a prokaryotic chromosome is based on the Markov chain statistical model. It is made up of the strategies AMIMat for the training of the compositional heterogeneity of CDS from a chromosome and AMIGene for the recognition and the filtering of the most probable CDS. AMIMat allows construction of k transition matrices from k gene classes defined according to synonymous codon usage. The AMIGene precision depends on the quality of the matrices and on other parameters automatically validated on reference annotations. A complete genome reannotation process, using these strategies, has been developed, in interaction with our multigenome database PkGDB, which facilitates the homogenisation of the databank annotations. This (re)annotation process is used in many projects: Bacillus, Neisseria, Acinetobacter, Enterobacteria.
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https://tel.archives-ouvertes.fr/tel-00008296
Contributor : Stéphanie Bocs <>
Submitted on : Monday, January 31, 2005 - 2:02:11 PM
Last modification on : Monday, December 14, 2020 - 9:52:55 AM
Long-term archiving on: : Friday, September 14, 2012 - 10:45:09 AM

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  • HAL Id : tel-00008296, version 1

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Stéphanie Bocs. (Ré)annotation de génomes procaryotes complets - Exploration de groupes de gènes chez les bactéries. Autre [q-bio.OT]. Université Pierre et Marie Curie - Paris VI, 2004. Français. ⟨tel-00008296⟩

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