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![References [1] STEWART, H. 2005. Biomolecular Interaction Network Database. Bioinformatics 6, 194-198. [2] BORNBERG-BAUER, E., AND PATON, N.W. 2002. Conceptual Data Modelling for Bioinformatics. Bioinformatics 3, 166-180. [3] WONG, L. 2002. Technologies for Integrating Biological Data. Bioinformatics 6, 389-404. [4] BIRNEY, E., AND CLAMP, M. 2004. Biological Database Design and Implementation. Bioinformatics 5, 31-38. [5] SCHONBACH, C., KOWALSKI-SAUNDERS, P., AND BRUSIC, V. 2000. Data Warehousing in Molecular Biology. Bioinformatics. 1, 190-198. [6] NG, A., BURSTEINAS, B., GAO, Q., MOLLISON, E., AND ZVELEBIL, M. 2006. Resources for Integrative Systems: From Data Through Databases to Networks and Dynamic System Models. Bioinformatics 7, 318-330. [7] CLARK, T., MARTIN, S., AND LIEFELD, T. 2004. Globally Distributed Object Identification for Biological Knowledgebases. Bioinformatics 5, 59-70. [8] RAGAN, M. 2005. Research Data in Bioscience and Bioinformatics. In Australian Partnership for Advanced Computing/Australian Partnership for Sustainable Repositories Data Collections Workshop, Canberra, AUS, October 2005. [9] LEE, T. ET. AL. 2006. BioWarehouse: a Bioinformatics Database Warehouse Toolkit. BMC Bioinformatics 7, 170. [10] KRISHNAMURTHY, L. ET. AL. 2003. Pathways database system: an integrated system for biological pathways. Bioinformatics. 19, 930-937. [11] BERGERON, B. 2002. Bioinformatics Computing . 80-101. [12] GAUTHAM, N. 2006. Bioinformatics: Databases and Algorithms . 26-53. [13] KOUM, G. ET. AL. 2005. Design and implementation of a mosquito database through an entomological ontology. Bioinformatics 21, 2797-2802.](https://image.slidesharecdn.com/bioinformaticsdatabases-090411191213-phpapp01/85/Bioinformatics-Databases-11-320.jpg)
Bioinformatics Databases
- 1. BIOINFORMATICS DATABASES: MANAGING THE COMPLEXITY OF LIFE Christopher Schlosberg CS 411 Graduate Project
- 2. Motivation of Databases for Bioinformatics Post-Genomic Era Systems Biology Gene Expression Data Proteomic Data Metabolomic Data Sequence Data [12]
- 3. Protein Sequence Search [12]
- 4. Standardized Identifiers & Data Formats Identifiers Locus name Accession numbers GenInfo IDs Pubmed IDs Data Formats
- 5. General Bio-DB Development Considerations [11] [2]
- 6. Relational Databases: Ontology Implementation Vectors(SpecieID, SpeciesName, SpeciesPopulation, SpeciesInfectionRate) VectorsRefuge(SpeciesID, RefugeIR, RefugeName, SamplePopulation) SeasonalSpecies(SeasonID, SpeciesID, SeasonName, SpeciesPopulation) LocalStat(LocalityID, Latitude, Longitude, SpeciesID, LocalityName, PopSampleSpecies)
- 7. Cross-Referencing Multiple Databases Use Data Warehousing Create Schema for centralized warehouse [9]
- 8. SQL Implementation for Feeder DBs [9]
- 9. Functional Querying Basic Statistical Neighborhood Path-finding [10]
- 10. Future Outlooks Machine Learning Data Mining Global Framework & Standardization
- 11. References [1] STEWART, H. 2005. Biomolecular Interaction Network Database. Bioinformatics 6, 194-198. [2] BORNBERG-BAUER, E., AND PATON, N.W. 2002. Conceptual Data Modelling for Bioinformatics. Bioinformatics 3, 166-180. [3] WONG, L. 2002. Technologies for Integrating Biological Data. Bioinformatics 6, 389-404. [4] BIRNEY, E., AND CLAMP, M. 2004. Biological Database Design and Implementation. Bioinformatics 5, 31-38. [5] SCHONBACH, C., KOWALSKI-SAUNDERS, P., AND BRUSIC, V. 2000. Data Warehousing in Molecular Biology. Bioinformatics. 1, 190-198. [6] NG, A., BURSTEINAS, B., GAO, Q., MOLLISON, E., AND ZVELEBIL, M. 2006. Resources for Integrative Systems: From Data Through Databases to Networks and Dynamic System Models. Bioinformatics 7, 318-330. [7] CLARK, T., MARTIN, S., AND LIEFELD, T. 2004. Globally Distributed Object Identification for Biological Knowledgebases. Bioinformatics 5, 59-70. [8] RAGAN, M. 2005. Research Data in Bioscience and Bioinformatics. In Australian Partnership for Advanced Computing/Australian Partnership for Sustainable Repositories Data Collections Workshop, Canberra, AUS, October 2005. [9] LEE, T. ET. AL. 2006. BioWarehouse: a Bioinformatics Database Warehouse Toolkit. BMC Bioinformatics 7, 170. [10] KRISHNAMURTHY, L. ET. AL. 2003. Pathways database system: an integrated system for biological pathways. Bioinformatics. 19, 930-937. [11] BERGERON, B. 2002. Bioinformatics Computing . 80-101. [12] GAUTHAM, N. 2006. Bioinformatics: Databases and Algorithms . 26-53. [13] KOUM, G. ET. AL. 2005. Design and implementation of a mosquito database through an entomological ontology. Bioinformatics 21, 2797-2802.