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Network Based Prioritization of Disease Genes

Erten, Mehmet Sinan

Abstract Details

2009, Master of Sciences, Case Western Reserve University, EECS - Computer and Information Sciences.
High-throughput molecular interaction data have been used effectively to prioritize candidate disease genes, based on the notion that genes associated with similar diseases are likely to interact with each other heavily in a network of protein-protein interactions (PPIs). An important challenge for these applications is the noisy nature of PPI data. Existing global methods alleviate these problems to a certain extent, by considering indirect interactions and multiplicity of paths. However, such methods favor highly connected genes, making prioritization sensitive to the degree distribution of PPI networks. Here, we propose several statistical adjustment schemes that aim to minimize these problems. While the proposed schemes are very effective in detecting loosely connected disease genes, they over-correct the highly connected genes. Motivated by these results, we develop hybrid models that integrate existing approaches with the proposed adjustment schemes. Experimental results show that proposed hybrid models significantly outperform existing methods in prioritizing disease genes.
Mehmet Koyuturk, PhD (Committee Chair)
Gultekin Ozsoyoglu, PhD (Committee Member)
Jing Li, PhD (Committee Member)
56 p.

Recommended Citations

Citations

  • Erten, M. S. (2009). Network Based Prioritization of Disease Genes [Master's thesis, Case Western Reserve University]. OhioLINK Electronic Theses and Dissertations Center. http://rave.ohiolink.edu/etdc/view?acc_num=case1258743578

    APA Style (7th edition)

  • Erten, Mehmet. Network Based Prioritization of Disease Genes. 2009. Case Western Reserve University, Master's thesis. OhioLINK Electronic Theses and Dissertations Center, http://rave.ohiolink.edu/etdc/view?acc_num=case1258743578.

    MLA Style (8th edition)

  • Erten, Mehmet. "Network Based Prioritization of Disease Genes." Master's thesis, Case Western Reserve University, 2009. http://rave.ohiolink.edu/etdc/view?acc_num=case1258743578

    Chicago Manual of Style (17th edition)