Scopus İndeksli Yayınlar Koleksiyonu
Permanent URI for this collectionhttps://hdl.handle.net/20.500.12573/395
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Article Citation - WoS: 7Citation - Scopus: 8The Determination of Distinctive Single Nucleotide Polymorphism Sets for the Diagnosis of Behcet's Disease(IEEE Computer Soc, 2022-05-01) Isik, Yunus Emre; Gormez, Yasin; Aydin, Zafer; Bakir-Gungor, BurcuBehcet's Disease (BD) is a multi-system inflammatory disorder in which the etiology remains unclear. The most probable hypothesis is that genetic tendency and environmental factors play roles in the development of BD. In order to find the essential reasons, genetic changes on thousands of genes should be analyzed. Besides, there is a need for extra analysis to find out which genetic factor affects the disease. Machine learning approaches have high potential for extracting the knowledge from genomics and selecting the representative Single Nucleotide Polymorphisms (SNPs) as the most effective features for the clinical diagnosis process. In this study, we have attempted to identify representative SNPs using feature selection methods, incorporating biological information and aimed to develop a machine-learning model for diagnosing Behcet's disease. By combining biological information and machine learning classifiers, up to 99.64 percent accuracy of disease prediction is achieved using only 13,611 out of 311,459 SNPs. In addition, we revealed the SNPs that are most distinctive by performing repeated feature selection in cross-validation experiments.Conference Object Modelling of Rock Comminution Using Statistical and Soft Computing Analyses – A Case Study on a Laboratory-Scale Jaw Crusher(Baski, 2022) Köken, E.The present study encompasses a quantitative investigation on rock comminution using statistical and soft computing analyses. For this purpose, physical and mechanical rock aggregate properties were determined for nine different rock types (R1-R9) in Turkey. Then, crushability tests were performed to determine the size reduction ratio (SRR) using a laboratory-scale jaw crusher. Based on statistical and soft computing analyses, five different predictive models (M1 to M5) were established to estimate the SRR in this study. Consequently, the SRR values are associated with water absorption by weight (w<inf>a</inf>), dry unit weight (γ<inf>d</inf>), and aggregate impact value (AIV) of the investigated rocks. However, the individual use of these independent variables results in undulating SRR estimations. Therefore, among the established predictive models, the empirical formulation based on artificial neural networks (ANN) (M5) was found to be the most reliable model with a correlation of determination value (R2) of 0.88. However, the predictive models stated in this study should be implemented to several portable jaw crushers to observe the similarities or difficulties in quantifying SRR as a function of rock properties in future studies. © 2022 Elsevier B.V., All rights reserved.Article Citation - WoS: 4Citation - Scopus: 7IGPRED-Multitask: A Deep Learning Model to Predict Protein Secondary Structure, Torsion Angles and Solvent Accessibility(IEEE Computer Soc, 2023-03-01) Gormez, Yasin; Aydin, ZaferProtein secondary structure, solvent accessibility and torsion angle predictions are preliminary steps to predict 3D structure of a protein. Deep learning approaches have achieved significant improvements in predicting various features of protein structure. In this study, IGPRED-Multitask, a deep learning model with multi task learning architecture based on deep inception network, graph convolutional network and a bidirectional long short-term memory is proposed. Moreover, hyper-parameters of the model are fine-tuned using Bayesian optimization, which is faster and more effective than grid search. The same benchmark test data sets as in the OPUS-TASS paper including TEST2016, TEST2018, CASP12, CASP13, CASPFM, HARD68, CAMEO93, CAMEO93_HARD, as well as the train and validation sets, are used for fair comparison with the literature. Statistically significant improvements are observed in secondary structure prediction on 4 datasets, in phi angle prediction on 2 datasets and in psi angel prediction on 3 datasets compared to the state-of-the-art methods. For solvent accessibility prediction, TEST2016 and TEST2018 datasets are used only to assess the performance of the proposed model.