WoS İndeksli Yayınlar Koleksiyonu
Permanent URI for this collectionhttps://hdl.handle.net/20.500.12573/394
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Article Predicting Respiratory Infection and Symptoms Development Using Gene Set Enrichment Scores and Machine Learning(Elsevier Sci Ltd, 2026) Aydin, Zafer; Isik, Yunus EmreRecent advancements in precision medicine enable personalized predictions grounded in individual-level genetic data. However, relying solely on a single type of data can decrease prediction accuracy and limit the biological interpretability of the resulting models. Incorporating predefined genetic knowledge, such as derived gene sets, can improve performance and provide deeper biological insights for complex diseases, including respiratory infections. This study aimed to evaluate the usability of enrichment scores (ES), calculated using gene sets from the Molecular Signatures Database (MSigDB), as a feature representation for machine learning models to predict respiratory viral infections and symptom development. In addition, the proposed feature representation approach was extensively compared with the de facto gene-level expression representation. A total of 36,834 predefined gene sets were compiled from the MSigDB, and their ES values were calculated. Experiments used the GSE73072 dataset from Gene Expression Omnibus, containing gene expression profiles before and after virus exposure. Various machine learning and feature selection algorithms were applied to ES-based and probe-level feature sets. The results showed that both feature representation approaches achieved an area under the precision-recall curve (AUPRC) value greater than 0.90 for all tasks. Compared with the Respiratory Viral DREAM Challenge leaderboard phase, our models showed a 14.8% improvement in pre-exposure predictions (T0) and a 17.4% improvement in symptom classification. Using enrichment scores as a feature representation generally resulted in better performance than probe-level representation when predicting respiratory infections and symptom development. Identifying key gene sets through feature selection and comparing them with essential genes for respiratory viruses enabled a more comprehensive analysis, providing deeper insights into the pathways that contribute to these predictions.Article System-Level Design and Experimental Demonstration of a Laser Power Transfer System(Elsevier Sci Ltd, 2026) Boyekin, Tahsin; Sari, A. Yigit; Boynuegri, Ali Rifat; Yigit, Hayri; Herdem, Yusuf; Kalebasi, M. Talha; Kumru, Celal F.This study presents the design and experimental validation of a laser-based wireless power transfer (LPT) system that integrates electrical, optical, and control subsystems within a unified framework. The proposed setup consists of a silicon carbide (SiC)-based LLC resonant converter driving a high-power laser diode, an optical transmission link of 20 m, and a photovoltaic (PV) receiver equipped with a maximum power point tracking (MPPT) unit. The system was designed to evaluate the feasibility of stable, continuous optical power transfer under realistic alignment and thermal conditions. Experimental results demonstrate that the laser driver achieves an electrical efficiency of 95.96%, while the overall end-to-end LPT efficiency reaches 12.4% at a delivered power level of approximately 99 W. The findings confirm that coordinated design of the driver, optical path, and receiver sub systems can significantly improve operational stability and energy conversion consistency, offering a practical reference for the development of medium-range optical power transfer systems.Article Integrative Bioinformatics Prediction of West Nile Virus-Derived microRNAs Reveals Potential Host Regulatory Interactions(Elsevier Sci Ltd, 2026-08) Demirci, Muserref Duygu Sacar; Orhan, Mehmet Emin; Erginkoc, Altay Nida; Saçar Demirci, Müşerref DuyguWest Nile virus (WNV) is a mosquito-borne flavivirus linked to severe neuroinvasive disease. Although host and vector microRNAs (miRNAs) have been implicated in viral infection, the presence and functional relevance of WNV-encoded miRNAs remain largely unexplored. Here, we developed an integrative bioinformatics pipeline that combines multiple miRNA prediction algorithms with secondary structure screening and host transcriptomic data to identify high-confidence candidate WNV-derived mature miRNAs. Overlap-based confidence scoring and differential expression support from RNA-seq datasets prioritized a small subset of putative miRNA-mRNA interactions with potential roles in infection-associated gene regulation. A competitive endogenous RNA network constructed from predicted mRNA, lncRNA, and circRNA targets highlighted pathways involving innate immunity, GPCR and Wnt signaling, RNA degradation, and viral replication. Together, these findings provide a reproducible computational workflow and nominate testable regulatory interactions for future experimental validation.Article Citation - WoS: 2Citation - Scopus: 2Numerical Analysis and Experimental Comparison of Stress and Stiffness Parameters of Steel Reinforced Geopolymer Concrete Columns(Elsevier Sci Ltd, 2026-01) Ozbayrak, Ahmet; Kucukgoncu, Hurmet; Aslanbay, Huseyin Hilmi; Aslanbay, Yuksel Gul; Altun, FatihDespite extensive research, Geopolymer concrete (GPC) lacks reinforced concrete construction and design specifications. Developing such specifications requires comprehensive studies to promote the use of GPC, which is known for its superior performance and environmental benefits compared to ordinary Portland cement concrete (OPC). This study numerically investigated and compared the behavior and strength of fly ash-based geopolymer-reinforced concrete columns with the experimental results. Comparisons with OPC were made based on existing specifications. Herein, FEM analyses were conducted on 16 GPC and 4 OPC columns under eccentric axial compressive loads. Parameters such as eccentricity, reinforcement ratio, curing method, and activation solution ratios were varied. According to average numerical results, the GPC columns have 7% more moment capacity and 30% more curvature values than OPC. Moreover, GPC columns absorbed more energy than OPC columns. Also, GPC columns have higher axial load and bending moment carrying capacities than OPC for numerical results. Error analysis between FEM and experimental data revealed a strong correlation, with MAPE values of 8.88% (axial load) and 7.20% (moment) for GPC columns, confirming the reliability of the numerical model. ACI 318 and Eurocode 2 specifications were deemed applicable for GPC columns, provided axial loads are limited per TEC 2018.Article Citation - WoS: 38Citation - Scopus: 38pH- and Temperature-Responsive Amphiphilic Diblock Copolymers of 4-Vinylpyridine and Oligoethyleneglycol Methacrylate Synthesized by RAFT Polymerization(Elsevier Sci Ltd, 2014-01) Topuzogullari, Murat; Bulmus, Volga; Dalgakiran, Eray; Dincer, SevilDiblock copolymers of 4-vinylpyridine (4VP) and oligoethyleneglycol methyl ether methacrylate (OEGMA) were synthesized for the first time using RAFT polymerization technique as potential drug delivery systems. Effects of the number of ethylene glycol units in OEGMA, chain length of hydrophobic P4VP block, pH, concentration and temperature on the solution behavior of the copolymers were investigated comprehensively. Copolymer chains formed micelles at pH values higher than 5 whereas unimeric polymers were observed to exist below pH 5, owing to the repulsion between positively charged P4VP blocks. The size of the micelles was dependent on the relative length of blocks, P4VP and POEGMA. Thermo-responsive properties of copolymers were investigated depending on the pH and length of P4VP block. The increase in the length of P4VP block decreased the LCST substantially at pH 7. At pH 3, LCST of copolymers shifted to higher temperatures due to the increased interaction of copolymers with water through positively charged P4VP block. (C) 2013 Elsevier Ltd. All rights reserved.Article Citation - WoS: 42Citation - Scopus: 57What Are the Key Success Factors for Strategy Formulation and Implementation? Perspectives of Managers in the Hotel Industry(Elsevier Sci Ltd, 2020-08) Koseoglu, Mehmet Ali; Altin, Mehmet; Chan, Eric; Aladag, Omer FarukThis study investigates how hotel managers describe strategy and identify key success factors for its formulation and implementation. The study analyzes qualitative data collected through semi-structured interviews with property level top managers of hotels in Hong Kong. The findings show that hotel managers prioritize competition analysis and macro-environmental conditions over internal characteristics such as teamwork in strategy formulation. In the implementation phase, however, internal considerations such as employee involvement and strategic consensus are given prominence. This study provides a significant contribution by examining how top level practitioners in the industry interpret success factors in their strategic management efforts, and it highlights a largely neglected area in the hospitality and tourism management literature.Article Citation - WoS: 24Citation - Scopus: 33Variable Structure Controllers for Unstable Processes(Elsevier Sci Ltd, 2015-08) Ablay, GunyazA variable structure control (VSC) method for unstable industrial processes is proposed. The proposed control method is able to provide a highly satisfactory system performance and to tackle with robustness issues of the processes in the presence of uncertainties. An ITAE-based numerical tuning algorithm for acquiring optimal control parameters, and a direct auto-tuning mechanism for the proposed controller are also provided. The performance of the proposed VSC method is illustrated on some unstable process models including a continuous stirred tank reactor (CSTR), in order to show its effectiveness, validity and feasibility. (C) 2015 Elsevier Ltd. All rights reserved.Article Citation - WoS: 23Citation - Scopus: 28Ultra-Rapid Catalytic Degradation of 4-Nitrophenol With Ionic Liquid Recoverable and Reusable Ibuprofen Derived Silver Nanoparticles(Elsevier Sci Ltd, 2018-06) Hassan, Syeda Sara; Carlson, Krista; Mohanty, Swomitra Kumar; Sirajuddin; Canlier, AliThis study reports a one-pot and eco-friendly method for the synthesis of spherical ibuprofen derived silver nanoparticles (IBU-AgNPs) in aqueous media using ibuprofen analgesics drug as capping as well as reducing agent. Formation of AgNPs occurred within a few min (less than 5 min) at room temperature without resorting to any harsh conditions and hazardous organic solvents. Synthesized AgNPs were characterized with common analytical techniques. Transmission electron microscope (TEM) images confirmed the formation of spherical particles having a size distribution in the range of 12.5 +/- 1.5 nm. Employment of IBU analgesic aided the control of better size distribution and prevented agglomeration of particles. Such AgNPs solution was highly stable for more than two months when stored at ambient temperature. The IBU-AgNPs solution showed excellent ultra-rapid catalytic activity for the complete degradation of toxic 4-nitrophenol (4-NPh) into non-toxic 4-aminophenol (4-APh) within 40 s. AgNPs were recovered with the help of water insoluble-room temperature ionic liquid and reused with enhanced catalytic potential. This method provides a novel, rapid and economical alternative for the treatment of toxic organic pollutants to maintain water quality and environmental safety against water pollution. It is extendable for the control of other reducible contaminants in water as well. Furthermore, this catalytic activity for an effective degradation of organic toxins is expected to play a crucial role for achieving the Sustainable Development Goal 6 set by United Nations. (C) 2017 Elsevier Ltd. All rights reserved.Article Citation - WoS: 135Citation - Scopus: 163Thermal Conductivity, Compressive Strength and Ultrasonic Wave Velocity of Cementitious Composite Containing Waste PET Lightweight Aggregate (WPLA)(Elsevier Sci Ltd, 2013-02) Akcaozoglu, Semiha; Akcaozoglu, Kubilay; Atis, Cengiz DuranIn this study, the influence of waste PET as lightweight aggregate (WPLA) replacement with conventional aggregate, on thermal conductivity, unit weight and compressive strength properties of concrete composite was investigated. For this purpose, five different mixtures were prepared (the control mixtures and four WPLA mixtures including 30%, 40%, 50%, and 60% waste PET aggregate by volume). Thermal conductivity (TC) coefficients of the specimens were measured with guarded hot plate apparatus according to TS ISO 8302 [1]. The thermal conductivity coefficient, unit weight and compressive strength of specimens decreased as the amount of WPLA increased in concrete. The minimum thermal conductivity value was 0.3924 W/m K, observed at 60% WPLA replacement. From this result, it was concluded that waste PET aggregates replacement with conventional aggregate in the mixture showed better insulation properties (i.e. lower thermal coefficient). Due to the low unit weight and thermal conductivity values of WPLA composites, there is a potential of using WPLA composites in construction applications. (c) 2012 Elsevier Ltd. All rights reserved.Article Citation - WoS: 259Citation - Scopus: 288The Role of Institutional Quality and Environment-Related Technologies in Environmental Degradation for BRICS(Elsevier Sci Ltd, 2021-07) Hussain, Muzzammil; Dogan, EyupAn expanding body of literature has highlighted the environment-growth nexus. However, the literature is scarce on the role of environmental technologies and institutional quality in environmental pollution. The present study aims to contribute to the existing knowledge by utilizing environment-related technologies (ERT), institutional quality (IQ), and energy consumption to investigate ecological footprints (EF) as a proxy for the environment in BRICS economies in a framework based on environmental Kuznets curve (EKC) theory. By using data from 1992 to 2016, long-and short-term relationships are estimated through cross-section augmented autoregressive distributive lag model, augmented mean group estimator, and common correlated effects mean group. The second-generation econometric tools indicate that IQ and ERT negatively affect ecological footprints, thereby implying reductions in environmental degradation. The EKC hypothesis is not validated, implying that an increase in economic activities causes an increase in pollution. Overall, BRICS economies should improve their quality of institutions and enhance investments in environmental technologies to achieve a sustainable environment in the future. Findings are robust to practical policy implications. (c) 2021 Elsevier Ltd. All rights reserved.