ParameciumDB in 2011: new tools and new data for functional and comparative genomics of the model ciliate Paramecium tetraurelia

被引：81

作者：

Arnaiz, Olivier

Sperling, Linda ^{[1
]}

机构：

[1] CNRS, FRE3144, Ctr Genet Mol, F-91198 Gif Sur Yvette, France

来源：

NUCLEIC ACIDS RESEARCH | 2011年 / 39卷

关键词：

SEQUENCE; ONTOLOGY; ALIGNMENT; PROTEIN; DNA;

D O I：

10.1093/nar/gkq918

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：

ParameciumDB is a community model organism database built with the GMOD toolkit to integrate the genome and biology of the ciliate Paramecium tetraurelia. Over the last four years, post-genomic data from proteome and transcriptome studies has been incorporated along with predicted orthologs in 33 species, annotations from the community and publications from the scientific literature. Available tools include BioMart for complex queries, GBrowse2 for genome browsing, the Apollo genome editor for expert curation of gene models, a Blast server, a motif finder, and a wiki for protocols, nomenclature guidelines and other documentation. In-house tools have been developed for ontology browsing and evaluation of off-target RNAi matches. Now ready for next-generation deep sequencing data and the genomes of other Paramecium species, this open-access resource is available at http://paramecium.cgm.cnrs-gif.fr.

引用

页码：D632 / D636

页数：5

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