A non-parametric circular network construction via simulations and a hidden Markov model for the HIV-1 protease cleavage site detection

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2023-1-27

Author

Doğan Dar, Elif

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In this thesis, problems regarding network structures are investigated. In the first part, a circular network model is built. In the literature, methods used to detect network structures of circular variables either have strong distributional assumptions or strict structural assumptions. To address these issues, a novel circular regression-based, non-parametric circular network model is proposed. The performance of the proposed method is examined in an extensive simulation study. In the second part, a method to utilize known network structures for further analyses is exemplified. An HMM model is built for the detection of the HIV-1 protease cleavage sites. By using feature selection and fuzzy clustering methods, a clever starting point is given to the Baum- Welch EM algorithm and the performance of earlier proposed methods is increased.

Subject Keywords

Circular data, Circadian gene interactions, Circular networks, Circular network simulation, Wrapped Cauchy distribution, Hidden Markov models, Fuzzy clustering, Feature selection

URI

https://hdl.handle.net/11511/102577

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Graduate School of Natural and Applied Sciences, Thesis

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Citation Formats

E. Doğan Dar, “A non-parametric circular network construction via simulations and a hidden Markov model for the HIV-1 protease cleavage site detection,” Ph.D. - Doctoral Program, Middle East Technical University, 2023.