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Protein Ontology Project
Advances in proteomics and protein expression techniques have lead to the elucidation of large amounts of protein data. Various data mining algorithms and mathematical models provide methods for analysing this data; however, there are two issues that need to be addressed: (1) the need for standards for defining protein data description and exchange formats so they can be exchanged across the World Wide Web, and also read into data mining software in a consistent format and (2) eliminating errors which arise with the data integration methodologies for complex queries. Protein Ontology is designed to meet these needs by providing a structured protein data specification for Protein Data Representation. Protein Ontology is a standard for representing protein data in a way that helps in defining data integration and data mining models for Protein Structure and Function.
Recent Publication: SIDHU, A. S., DILLON, T. S. & CHANG, E. (2005) An Ontology for Protein Data Models. IN ZHANG, Y. T., ROUX, C. & ZHUANG, T. G. (Eds.) 27th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC 2005). Shanghai, IEEE Engineering in Medicine and Biology Society.
Engineering Trustworthy Biomedical Ontology
Biomedical Ontologies are huge. It is not possible for any one person to manage and engineer a complete ontology. They would need the help of Research Assistants and other people to develop and maintain the ontology. In the process of developing and maintaining the ontology the Research Assistants may enter incorrect data, resulting in low quality of the ontology. We propose a conceptual framework to solve these ontology management and ontology development issues. There can be N assistants entering data into the ontology. All the data entered initially is stored in an intermediate ontology. The administrator of the ontology has a set of rules, which makes a checklist that checks and validates the data in intermediate ontology for correctness according to the ontology schema. We use the Case Study of Protein Ontology for this proposed approach to develop interfaces for assistants and administrators. The proposed approach can easily be extended to other biomedical ontologies just by tweaking the administrator rule set according to the ontology.
Recent Publication: Hussain, F. K., A. S. Sidhu, et al. (2006).Engineering Trustworthy Ontologies: Case Study of Protein Ontology. Special Track on Ontologies for Biomedical Systems at 19th IEEE International Symposium on Computer-Based Medical Systems (CBMS 2006), Salt Lake City, Utah., IEEE CS Press.