Nucleic Acids Research Advance Access originally published online on November 16, 2006
Nucleic Acids Research 2007 35(Database issue):D439-D444; doi:10.1093/nar/gkl777
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Nucleic Acids Research, 2007, Vol. 35, Database issue D439-D444
© 2006 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
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ParameciumDB: a community resource that integrates the Paramecium tetraurelia genome sequence with genetic data
Centre de Génétique Moléculaire, CNRS 91198 Gif-sur-Yvette, France 1 Cold Spring Harbor Laboratory, Cold Spring Harbor NY 11724, USA
*To whom correspondence should be addressed. Tel: +33169823209; Fax: +33169823150; Email: sperling{at}cgm.cnrs-gif.fr
Received August 10, 2006. Revised September 27, 2006. Accepted September 29, 2006.
ParameciumDB (http://paramecium.cgm.cnrs-gif.fr) is a new model organism database associated with the genome sequencing project of the unicellular eukaryote Paramecium tetraurelia. Built with the core components of the Generic Model Organism Database (GMOD) project, ParameciumDB currently contains the genome sequence and annotations, linked to available genetic data including the Gif Paramecium stock collection. It is thus possible to navigate between sequences and stocks via the genes and alleles. Phenotypes, of mutant strains and of knockdowns obtained by RNA interference, are captured using controlled vocabularies according to the Entity-Attribute-Value model. ParameciumDB currently supports browsing of phenotypes, alleles and stocks as well as querying of sequence features (genes, UniProt matches, InterPro domains, Gene Ontology terms) and of genetic data (phenotypes, stocks, RNA interference experiments). Forms allow submission of RNA interference data and some bioinformatics services are available. Future ParameciumDB development plans include coordination of human curation of the near 40 000 gene models by members of the research community.
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