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Building a Cell and Anatomy Ontology of Caenorhabditis elegans英文文献资料.doc

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Building a Cell and Anatomy Ontology of Caenorhabditis elegans英文文献资料

ComparativeandFunctionalGenomics CompFunctGenom2003;4 :121–126. PublishedonlineinWileyInterScience().DOI:10.1002/cfg.248 ConferenceReview Buildingacellandanatomyontologyof Caenorhabditiselegans RaymondY.N.Lee*andPaulW.Sternberg WormBase, DivisionofBiology,California InstituteofTechnology, Pasadena, CA91125,USA *Correspondence to: Abstract Raymond Y.N.Lee,WormBase, 156-29 California Instituteof Technology, Pasadena, CA 91125,USA. E-mail:raymond@ URL: Weareendowed witharichknowledge aboutCaenorhabditis elegans.Itsstereotyped anatomy and development has stimulated research and resulted inthe accumulation of cell-based information concerning gene expression, and the role of speci?c cells indevelopmental signalling and behavioural circuits. Tomake the information more accessible to sophisticated queries and automated retrieval systems, WormBase has begun to construct a C. elegans cell and anatomy ontology. Here we present our strategies and progress. Copyright ?2003 John Wiley Sons, Ltd. Received: 11November 2002 Accepted: 2December 2002 Keywords: technology Caenorhabditis elegans; ontology; cell and anatomy; information Introduction of developmental indeterminacy; we know, at the electronmicroscopy(EM)level,howmostneurons are connected to each other [1,15]; we know the functionofmanycellsindevelopment orinmature animals; and we have detailed functional and morphological information on anatomy (generally reviewed in[6,16]). Thus, a C. elegans cell and anatomy ontology (CECAO) would be useful to organize allthis information. Ontologiesallowbetterorganizationofknowledge. By explicitly specifying semantics and relations, ontologies make itpossible toeffectively organize complex information. A successful ontology con- sists of factual statements organized in a strictly logical manner. Consequently, an ontology can be expressed in a computer-understandable language, dramatically increasing itsutility. Ontologiesareusefultobiologists;thegreatsuc- cessoftheGeneOntol