NDLI: AGMIAL: implementing an annotation strategy for prokaryote genomes as a distributed system

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AGMIAL: implementing an annotation strategy for prokaryote genomes as a distributed system

Content Provider	Hyper Articles en Ligne (HAL)
Author	Bryson, K. Loux, Valentin Bossy, Robert, R. Nicolas, P. Chaillou, Stephane, S. van de Guchte, Maarten Penaud, Stéphanie Maguin, Emmanuelle Hoebeke, Mark Bessières, Philippe Gibrat, Jean-François
Copyright Year	2006
Abstract	We have implemented a genome annotation system for prokaryotes called AGMIAL. Our approach embodies a number of key principles. First, expert manual annotators are seen as a critical component of the overall system; user interfaces were cyclically refined to satisfy their needs. Second, the overall process should be orchestrated in terms of a global annotation strategy; this facilitates coordination between a team of annotators and automatic data analysis. Third, the annotation strategy should allow progressive and incremental annotation from a time when only a few draft contigs are available, to when a final finished assembly is produced. The overall architecture employed is modular and extensible, being based on the W3 standard Web services framework. Specialized modules interact with two independent core modules that are used to annotate, respectively, genomic and protein sequences. AGMIAL is currently being used by several INRA laboratories to analyze genomes of bacteria relevant to the food-processing industry, and is distributed under an open source license.
Related Links	https://hal.inrae.fr/hal-02665192/file/2006_Bryson_Nucleic%20Acids%20Research_1.pdf
ISSN	03051048
e-ISSN	13624962
DOI	10.1093/nar/gkl471
Journal	Nucleic Acids Research
PubMed reference number	16855290
Issue Number	12
Volume Number	34
Language	English
Publisher	HAL CCSD Oxford University Press
Publisher Date	2006-01-01
Access Restriction	Open
Content Type	Text
Resource Type	Article
Subject	Genetics Medicine Biochemistry, Genetics and Molecular Biology

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