ACLAME: A CLAssification of Mobile genetic Elements, update 2010

被引：233

作者：

Leplae, Raphael ^{[1
]}

Lima-Mendez, Gipsi ^{[1
]}

Toussaint, Ariane ^{[1
]}

机构：

[1] Univ Libre Bruxelles, B-1050 Brussels, Belgium

来源：

NUCLEIC ACIDS RESEARCH | 2010年 / 38卷

关键词：

PHAGE; DATABASE; ONTOLOGY; TOOL;

D O I：

10.1093/nar/gkp938

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

The ACLAME database is dedicated to the collection, analysis and classification of sequenced mobile genetic elements (MGEs, in particular phages and plasmids). In addition to providing information on the MGEs content, classifications are available at various levels of organization. At the gene/protein level, families group similar sequences that are expected to share the same function. Families of four or more proteins are manually assigned with a functional annotation using the GeneOntology and the locally developed ontology MeGO dedicated to MGEs. At the genome level, evolutionary cohesive modules group sets of protein families shared among MGEs. At the population level, networks display the reticulate evolutionary relationships among MGEs. To increase the coverage of the phage sequence space, ACLAME version 0.4 incorporates 760 high-quality predicted prophages selected from the Prophinder database. Most of the data can be downloaded from the freely accessible ACLAME web site (http://aclame.ulb.ac.be). The BLAST interface for querying the database has been extended and numerous tools for in-depth analysis of the results have been added.

引用

页码：D57 / D61

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