David Bourget (Western Ontario)
David Chalmers (ANU, NYU)
Rafael De Clercq
Jack Alan Reynolds
Learn more about PhilPapers
Darren A. Natale, Cecilia N. Arighi, Winona Barker, Judith Blake, Ti-Cheng Chang, Zhangzhi Hu, Hongfang Liu, Barry Smith & Cathy H. Wu
BMC Bioinformatics, Nov. 2007, 8(Suppl. 9) 8 (9):S1 (2007)
Biomedical ontologies are emerging as critical tools in genomic and proteomic research where complex data in disparate resources need to be integrated. A number of ontologies exist that describe the properties that can be attributed to proteins; for example, protein functions are described by Gene Ontology, while human diseases are described by Disease Ontology. There is, however, a gap in the current set of ontologies—one that describes the protein entities themselves and their relationships. We have designed a PRotein Ontology (PRO) to facilitate protein annotation and to guide new experiments. The components of PRO extend from the classification of proteins on the basis of evolutionary relationships to the representation of the multiple protein forms of a gene (products generated by genetic variation, alternative splicing, proteolytic cleavage, and other post-translational modification). PRO will allow the specification of relationships between PRO, GO and other OBO Foundry ontologies. Here we describe the initial development of PRO, illustrated using human proteins from the TGF-beta signaling pathway (http://pir.georgetown.edu/pro).
|Keywords||No keywords specified (fix it)|
|Categories||categorize this paper)|
|Through your library||Configure|
Similar books and articles
Jan Klysik (2001). Concept of Immunomics: A New Frontier in the Battle for Gene Function? Acta Biotheoretica 49 (3).
Barry Smith (2008). Ontology (Science). In Luciano Floridi (ed.), Formal Ontology in Information Systems. Blackwell. 153--166.
Paul Erbrich (1985). On the Probability of the Emergence of a Protein with a Particular Function. Acta Biotheoretica 34 (1).
Daniel L. Rubin (2012). Finding the Meaning in Images: Annotation and Image Markup. Philosophy, Psychiatry, and Psychology 18 (4):311-318.
J. P. Liautard (1999). Analytical Background and Discussion of the Chaperone Model of Prion Diseases. Acta Biotheoretica 47 (3-4).
Jing Huang & Feng Shi (2005). Support Vector Machines for Predicting Apoptosis Proteins Types. Acta Biotheoretica 53 (1).
Anand Kumar & Barry Smith (2003). The Unified Medical Language System and the Gene Ontology: Some Critical Reflections. In KI 2003: Advances in Artificial Intelligence.
William Goodwin (2011). Structure, Function, and Protein Taxonomy. Biology and Philosophy 26 (4):533-545.
Alejandro Balbín & Eugenio Andrade (2004). Protein Folding and Evolution Are Driven by the Maxwell Demon Activity of Proteins. Acta Biotheoretica 52 (3).
Clifton Perry (1981). We Are What We Eat. Environmental Ethics 3 (4):341-350.
Added to index2009-07-06
Total downloads30 ( #48,114 of 1,018,103 )
Recent downloads (6 months)1 ( #65,012 of 1,018,103 )
How can I increase my downloads?