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The Cell Cycle Ontology, or CCO, project aims to extend the existing ontologies for cell cycle knowledge, to build a resource that integrates and manages knowledge about the cell cycle components and regulatory aspects in OBO and OWL. This knowledge is assembled from a diverse set of already existing resources (GO, IntAct, BIND, NCBI taxonomy, and so forth): the combination of the knowledge will give an overall picture of the cell division process. Not only enriched by the combination of resources, Ontology Design Patterns will be appplied in the OWL version of CCO to provide a fine-grained and expressive knowledge model of the cell cycle. Users will be able to do expressive queries and hypotheses validation against the system.

Each element has a unique identifier of the form CCO:cnnnnnnn. CCO indicates that the concept belongs to the CCO ontology (CCO is also known as the ontology namespace), c denotes de sub-namespace: C (cellular component), P (biological process), F (molecular function), R (reference), T (taxon), I (interaction) and B (bio-molecular entity). Finally, nnnnnnn consists of 7 numerical characters.

[edit] Availability

Currently, CCO contains 44312 terms and 29 relationships. The ontology in OBO format can be edited using OBO-Edit and the OWL version can also be edited using Protégé. All kinds of curation requests and suggestions are very welcome. The project is under constant development, and future plans include other databases, more expressive OWL (using Ontology Design Patterns), better querying interfaces, and more.

CCO is available in several different formats:

• OBO,
• OWL,
• DOT, and
• GML.

Besides, this application ontology is available for four different organisms:

• Arabidopsis thaliana,
• Saccharomyces cerevisiae,
• Schizosaccharomyces pombe, and
• Homo sapiens.

[edit] External links

• Cell Cycle Ontology project

• Open Biomedical Ontologies (OBO)

• Gene Ontology

• Formal Ontology