Computer Engineering / Bilgisayar Mühendisliği
Permanent URI for this collectionhttps://hdl.handle.net/11147/10
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Article Citation - WoS: 4Citation - Scopus: 4Integrative Biological Network Analysis To Identify Shared Genes in Metabolic Disorders(Institute of Electrical and Electronics Engineers, 2022) Tenekeci, Samet; Işık, ZerrinIdentification of common molecular mechanisms in interrelated diseases is essential for better prognoses and targeted therapies. However, complexity of metabolic pathways makes it difficult to discover common disease genes underlying metabolic disorders; and it requires more sophisticated bioinformatics models that combine different types of biological data and computational methods. Accordingly, we built an integrative network analysis model to identify shared disease genes in metabolic syndrome (MS), type 2 diabetes (T2D), and coronary artery disease (CAD). We constructed weighted gene co-expression networks by combining gene expression, protein-protein interaction, and gene ontology data from multiple sources. For 90 different configurations of disease networks, we detected the significant modules by using MCL, SPICi, and Linkcomm graph clustering algorithms. We also performed a comparative evaluation on disease modules to determine the best method providing the highest biological validity. By overlapping the disease modules, we identified 22 shared genes for MS-CAD and T2D-CAD. Moreover, 19 out of these genes were directly or indirectly associated with relevant diseases in the previous medical studies. This study does not only demonstrate the performance of different biological data sources and computational methods in disease-gene discovery, but also offers potential insights into common genetic mechanisms of the metabolic disorders.Article Citation - WoS: 6Citation - Scopus: 6Cauchy-Rician Model for Backscattering in Urban Sar Images(Institute of Electrical and Electronics Engineers, 2022) Karakuş, Oktay; Kuruoğlu, Ercan Engin; Achim, Alin; Altınkaya, Mustafa AzizThis letter presents a new statistical model for urban scene synthetic aperture radar (SAR) images by combining the Cauchy distribution, which is heavy tailed, with the Rician backscattering. The literature spans various well-known models most of which are derived under the assumption that the scene consists of multitudes of random reflectors. This idea specifically fails for urban scenes since they accommodate a heterogeneous collection of strong scatterers such as buildings, cars, and wall corners. Moreover, when it comes to analyzing their statistical behavior, due to these strong reflectors, urban scenes include a high number of high amplitude samples, which implies that urban scenes are mostly heavy-tailed. The proposed Cauchy-Rician model contributes to the literature by leveraging nonzero location (Rician) heavy-tailed (Cauchy) signal components. In the experimental analysis, the Cauchy-Rician model is investigated in comparison to state-of-the-art statistical models that include $\mathcal {G}_{0}$ , generalized gamma, and the lognormal distribution. The numerical analysis demonstrates the superior performance and flexibility of the proposed distribution for modeling urban scenes.