This thesis analyzes major microarray repositories and presents a metadata
framework both to address the current issues and to promote the main operations
such as knowledge discovery, sharing, integration, and exchange. The proposed
framework is demonstrated in a case study on real data and can be used for other
high throughput repositories in biomedical domain.
Not only the number of microarray experimentation increases, but also the
size and complexity of the results rise in response to biomedical inquiries. And,
experiment results are significant when examined in a batch and placed in a
biological context. There have been standardization initiatives on content, object
model, exchange format, and ontology. However, they have proprietary information
space. There are backlogs and the data cannot be exchanged among the repositories.
There is a need for a format and data management standard at present.iv
v
We introduced a metadata framework to include metadata card and semantic
nets to make the experiment results visible, understandable and usable. They are
encoded in standard syntax encoding schemes and represented in XML/RDF. They
can be integrated with other metadata cards, semantic nets and can be queried. They
can be exchanged and shared. We demonstrated the performance and potential
benefits with a case study on a microarray repository.
This study does not replace any product on repositories. A metadata
framework is required to manage such huge data. We state that the backlogs can be
reduced, complex knowledge discovery queries and exchange of information can
become possible with this metadata framework.
| Identifer | oai:union.ndltd.org:METU/oai:etd.lib.metu.edu.tr:http://etd.lib.metu.edu.tr/upload/12615090/index.pdf |
| Date | 01 June 2012 |
| Creators | Kocabas, Fahri |
| Contributors | Baykal, Nazife |
| Publisher | METU |
| Source Sets | Middle East Technical Univ. |
| Language | English |
| Detected Language | English |
| Type | Ph.D. Thesis |
| Format | text/pdf |
| Rights | To liberate the content for public access |
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