The Drosophila Interactions Database: Integrating The Interactome And Transcriptome

<p>In this thesis I describe the integration of heterogeneous interaction data for <i>Drosophila</i> into DroID, the <i>Drosophila</i>interactions database, making it a one-stop public resource for interaction data. I have also made it possible to filter the interaction data using gene expression data to generate context-relevant networks making DroID a one-of-a kind resource for biologists. In the two years since the upgraded DroID has been available, several studies have used the heterogeneous interaction data in DroID to advance our understanding of <i>Drosophila</i> biology thus validating the need for such a resource for biologists. In addition to this, I have identified organizing principles of interaction networks based on genome-wide gene expression data in the tissues and the entire life cycle of <i>Drosophila</i>. I have shown that all tissues and stages have a core ubiquitously expressed PPI network to which tissue and stage specific proteins attach to potentially modulate specific functions. In view of these organizing principles, I developed a normalized expression filter for interaction networks. I have shown that networks generated by using this filter are context-relevant as evidenced by their enrichment for genes with relevant mutant phenotypes. This filter has been implemented in DroID and I anticipate that studies on interactome networks using this filter will further our understanding of biology.</p>

Name thesis:degree_name

Ph.D.

Level thesis:degree_level

Open Access Dissertation

Discipline thesis:degree_discipline

Molecular Biology and Genetics

Year dc:date.available

2013

Author dc:creator

• Murali, Thilakam

Contributors dc:contributor

• Russell L. Finley Jr.

• Data integration
• Drosophila
• Drosophila Interactions Database
• Interaction network
• Protein-protein interactions
• scaling/ normalization of gene expression
• Bioinformatics
• Genetics
• Molecular Biology

Repository record dc:identifier

https://digitalcommons.wayne.edu/oa_dissertations/788

OAI identifier oai:identifier

oai:digitalcommons.wayne.edu:oa_dissertations-1787