Protein Ontology Project in 2007: Looking Backward and Forward

Protein ontology is designed to provide 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. In paper we summarize the development of PO that we discussed in previous chapters. A large number of diverse bioinformatics sources are available today. The future of biological sciences promises more data. No individual data source will provide us with answers to queries that we need to ask. Instead knowledge has to be composed from multiple data sources to answer the queries. Even though multiple databases may cover same data their focus might be different. Thus, protein ontology project is an ongoing project with creation of every new protein data source. We also outline here in this paper the future work that we will be doing in protein ontology project.

[1]  J. Williams,et al.  A Review Document , 1998 .

[2]  Olivier Bodenreider,et al.  The Unified Medical Language System (UMLS): integrating biomedical terminology , 2004, Nucleic Acids Res..

[3]  Fábio Porto.  Reasoning on Dynamically Built Reasoning Space with Ontology Modules , 2005, OTM Conferences.

[4]  Shensheng Zhang,et al.  Collaborative knowledge management by integrating knowledge modeling and workflow modeling , 2005, IRI -2005 IEEE International Conference on Information Reuse and Integration, Conf, 2005..

[5]  Tharam S. Dillon,et al.  Towards Semantic Interoperability of Protein Data Sources , 2006, OTM Workshops.

[6]  Tharam S. Dillon,et al.  Advances in Protein Ontology Project , 2006, 19th IEEE Symposium on Computer-Based Medical Systems (CBMS'06).

[7]  Maria-Esther Vidal,et al.  Semantic Model to Integrate Biological Resources , 2006, 22nd International Conference on Data Engineering Workshops (ICDEW'06).

[8]  Brigitte Mathiak,et al.  A database ontology for signal transduction pathways , 2007, Int. J. Bioinform. Res. Appl..

[9]  Jake Yue Chen,et al.  A case study of integrating protein interaction data using semantic web technology , 2007, Int. J. Bioinform. Res. Appl..

[10]  J. Blake,et al.  Creating the Gene Ontology Resource : Design and Implementation The Gene Ontology Consortium 2 , 2001 .

[11]  Christopher G Chute,et al.  National Center for Biomedical Ontology: advancing biomedicine through structured organization of scientific knowledge. , 2006, Omics : a journal of integrative biology.

[12]  Ontology " the Specification of a Shared Conceptualization " a Review Document , 2022 .

[13]  TAMBIS--Transparent Access to Multiple Bioinformatics Information Sources. , 1998, Proceedings. International Conference on Intelligent Systems for Molecular Biology.

[14]  Amandeep S. Sidhu,et al.  Protein Ontology Project: 2007 updates , 2007 .

[15]  Chris F. Taylor,et al.  The MGED Ontology: a resource for semantics-based description of microarray experiments , 2006, Bioinform..

[16]  Brigitte Mathiak,et al.  A Coevolution Approach for Database Schemas and Related Ontologies , 2006, 19th IEEE Symposium on Computer-Based Medical Systems (CBMS'06).

[17]  Russ B. Altman,et al.  RiboWeb: An Ontology-Based System for Collaborative Molecular Biology , 1999, IEEE Intell. Syst..

[18]  Tharam S. Dillon,et al.  IMB3-Miner: Mining Induced/Embedded Subtrees by Constraining the Level of Embedding , 2006, PAKDD.

[19]  Padraig Cunningham,et al.  Comparison of the Data-based and Gene Ontology-Based Approaches to Cluster Validation Methods for Gene Microarrays , 2006, 19th IEEE Symposium on Computer-Based Medical Systems (CBMS'06).

[20]  Hongfang Liu,et al.  Framework for a Protein Ontology , 2007, BMC Bioinformatics.