Scopus İndeksli Yayınlar Koleksiyonu / Scopus Indexed Publications Collection
Permanent URI for this collectionhttps://hdl.handle.net/11147/7148
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Article Citation - WoS: 4Citation - Scopus: 4Optimization of Resource-Aware Parallel and Distributed Computing: a Review(Springer, 2025) Czarnul, Pawel; Antal, Marcel; Baniata, Hamza; Griebler, Dalvan; Kertesz, Attila; Kessler, Christoph W.; Rakic, GordanaThis paper presents a review of state-of-the-art solutions concerning the optimization of computing in the field of parallel and distributed systems. Firstly, we contribute by identifying resources and quality metrics in this context including servers, network interconnects, storage systems, computational devices as well as execution time/performance, energy, security, and error vulnerability, respectively. We subsequently identify commonly used problem formulations and algorithms for integer linear programming, greedy algorithms, dynamic programming, genetic algorithms, particle swarm optimization, ant colony optimization, game theory, and reinforcement learning. Afterward, we characterize frequently considered optimization problems by stating these terms in domains such as data centers, cloud, fog, blockchain, high performance, and volunteer computing. Based on the extensive analysis, we identify how particular resources and corresponding quality metrics are considered in these domains and which problem formulations are used for which system types, either parallel or distributed environments. This allows us to formulate open research problems and challenges in this field and analyze research interest in problem formulations/domains in recent years.Article Citation - WoS: 1Citation - Scopus: 1Effect of Soil Water Content Changes on the Behavior of Buildings Equipped With Single and Double Tuned Mass Dampers Subjected To Earthquakes(Springer Science and Business Media Deutschland GmbH, 2025) Roozbahan, M.; Turan, G.Tuned mass dampers (TMDs) are one of the structural control systems that have been frequently used in the last century. A TMD is designed according to the properties of the main system. In building applications, the substructure’s soil affects the response of buildings, especially in soft-type soils. Therefore, the soil properties should be included in the analysis and design of tuned mass dampers. However, the soil properties are not always identical and vary due to different factor changes such as soil water content changes. Unlike previous research, which typically assumes constant soil properties, this study incorporates the impact of soil water content changes, a key factor that can significantly alter soil behavior. This study aims to evaluate the effectiveness of optimized single and double tuned mass dampers (DTMDs) in response reduction of buildings considering the changes in the water content of soil. In this study, a metaheuristic-based optimization method is programmed to optimize TMDs and DTMDs for low-, mid-, and high-rise buildings considering soil-structure interaction (SSI). The efficiency of the optimized tuned mass dampers on the response reduction of buildings due to changes in soil water content is evaluated. According to the investigated results of 14 near-field earthquake simulations, it is concluded that the efficiency of the TMDs is significantly affected by changes in soil water content. Moreover, according to the result, the DTMD efficiency is slightly better than the TMD-controlled structure. © Springer Nature Switzerland AG 2025.Article Citation - WoS: 3Citation - Scopus: 3Shelf-Life Extension of Traditional Licorice Root “sherbet” With a Novel Pulsed Electric Field Processing(Frontiers Media S.A., 2023) Akdemir Evrendilek, Gulsun; Demir, Irem; Uzuner, SibelPulsed electric field (PEF) processing of licorice root "sherbet" (LRS) by various electric field strengths (7.00, 15.50, and 24.10 kV/cm), treatment times (108, 432, and 756 mu sec), and processing temperatures (6, 18, and 30 degrees C) according to the Box-Behnken design were performed. The samples were analyzed for pH, titratable acidity, conductivity, turbidity, total reducing sugar, color (L*, a*, and b*), hue, chroma, total color difference, color intensity, color tone (yellow, red, and blue color tones), total antioxidant capacity, total phenolic substance content, and sensory properties. Results revealed that PEF processing did not adversely affect most of the physical, chemical, and sensory properties of LRS, with a maximum of 2.48, 4.04, 1.78, and 1.20 log reductions on the initial total mesophilic aerobic bacteria, total mold and yeast, Bacillus circulans, and Candida tropicalis. The response variable modeled for the PEF was found to be conductivity, with the optimum processing conditions of 6.90 kV/cm, 756.00 mu s, and 7.48 degrees C. After that, the samples were stored at 4 degrees C and 22 degrees C for shelf-life studies. Control samples at 4 degrees C and 22 degrees C were spoiled on the fifth and second days, whereas PEF-treated samples stored at 4 degrees C began to deteriorate after the 40th day and the samples stored at 22 degrees C after the 30th day, respectively. It was revealed that PEF is a suitable process to extend the shelf-life of licorice "sherbet" with preservation of physicochemical and sensory properties.Article Phase Shift Optimization for Ris Enabled Pnc System With Multiple Antennas(Ieee-inst Electrical Electronics Engineers inc, 2024) Ilguy, Mert; Ozbek, Berna; Musavian, Leila; Mumtaz, ShahidReconfigurable intelligent surfaces (RIS) have been developed to exploit the stochastic characteristics of the propagation environment for next generation wireless systems. On the other hand, the integration of wireless physical network coding (PNC) and multiple antennas yields notable enhancements in system performance. This paper presents a multiuser system, employing RIS enabled PNC alongside multiple antennas to minimize both delay and error probability. Our aim is to establish reliable communication between the user pairs, which communicate through a base station (BS) via RIS. Therefore, the reflecting coefficients including both phases and amplitudes of the RIS are optimized by using the alternating direction method of multipliers (ADMM) algorithm for both single and multiple RIS cases. Extensive results are presented to compare the proposed algorithm with random phase shift, network coding (NC) and the search algorithm to illustrate its superiority.Article Citation - WoS: 5Citation - Scopus: 6Sequence Identification and in Silico Characterization of Novel Thermophilic Lipases From Geobacillus Species(WILEY, 2023) Sürmeli, Yusuf; Tekedar, Hasan Cihad; Sanli-Mohamed, GulsahMicrobial lipases are utilized in various biotechnological areas, including pharmaceuticals, food, biodiesel, and detergents. In this study, we cloned and sequenced Lip21 and Lip33 genes from Geobacillus sp. GS21 and Geobacillus sp. GS33, then we in silico and experimentally analyzed the encoded lipases. For this purpose, Lip21 and Lip33 were cloned, sequenced, and their amino acid sequences were investigated for determination of biophysicochemical characteristics, evolutionary relationships, and sequence similarities. 3D models were built and computationally affirmed by various bioinformatics tools, and enzyme-ligand interactions were investigated by docking analysis using six ligands. Biophysicochemical property of Lip21 and Lip33 was also determined experimentally and the results demonstrated that they had similar isoelectric point (pI) (6.21) and T-m (75.5(degrees)C) values as T-m was revealed by denatured protein analysis of the circular dichroism spectrum and pI was obtained by isoelectric focusing. Phylogeny analysis indicated that Lip21 and Lip33 were the closest to lipases from Geobacillus sp. SBS-4S and Geobacillus thermoleovorans, respectively. Alignment analysis demonstrated that S144-D348-H389 was catalytic triad residues in Lip21 and Lip33, and enzymes possessed a conserved Gly-X-Ser-X-Gly motif containing catalytic serine. 3D structure analysis indicated that Lip21 and Lip33 highly resembled each other and they were alpha/beta hydrolase-fold enzymes with large lid domains. BAN Delta IT analysis results showed that Lip21 and Lip33 had higher thermal stability, compared to other thermostable Geobacillus lipases. Docking results revealed that Lip21- and Lip33-docked complexes possessed common residues (H112, K115, Q162, E163, and S141) that interacted with the substrates, except paranitrophenyl (pNP)-C10 and pNP-C12, indicating that these residues might have a significant action on medium and short-chain fatty acid esters. Thus, Lip21 and Lip33 can be potential candidates for different industrial applications.Article Citation - WoS: 2Citation - Scopus: 3High-Pressure Processing of Traditional Hardaliye Drink: Effect on Quality and Shelf-Life Extension(MDPI, 2023) Atmaca, Bahar; Demiray, Merve; Akdemir Evrendilek, Gülsün; Bulut, Nurullah; Uzuner, SibelHardaliye, as one of the oldest and lesser known traditional beverages, is produced using red grape pomace from wine production. This drink production is achieved through lactic acid fermentation, with the addition of sour cherry leaves and mustard seeds-either heat-treated, grinded, or whole-in various concentrations. Hardaliye has a very short shelf life; thus, efforts have recently been made to process hardaliye with novel processing technologies in order to achieve shelf-life extension. Therefore, the high-hydrostatic-pressure (HHP) processing of hardaliye was performed to determine its impact on important properties, including in microbial inactivation and shelf-life extension, with respect to a Box-Behnken experimental design. Maximum log reductions of 5.38 & PLUSMN; 0.6, 5.10 & PLUSMN; 0.0, 5.05 & PLUSMN; 0.2, and 4.21 & PLUSMN; 0.0 with HHP were obtained for Brettanomyces bruxellensis, total mesophilic aerobic bacteria, Lactobacillus brevis, and total mold and yeast, respectively. The processing parameters of 490 MPa and 29 & DEG;C for 15 min were found as the optimal conditions, with the response variables of an optical density at 520 nm and the inactivation of L. brevis. The samples processed at the optimal conditions were stored at both 4 and 22 & DEG;C for 228 d. While the non-treated control samples at 4 and 22 & DEG;C were spoiled at 15 and 3 d, the HHP-treated samples were spoiled after 228 and 108 d at 4 and 22 & DEG;C, respectively.Article Citation - WoS: 4Citation - Scopus: 4Optimizing the Dispersion of Calcium Phosphate Nanoparticles for Cellular Studies Using Statistical Design of Experiments(Elsevier, 2023) Önder, Anıl Can; Tomak, Aysel; Öksel Karakuş, CeydaThe in vitro experimentation of ceramic nanoparticles often requires their dispersion in liquid media without causing particle clumps or deteriorating sample integrity. However, the dispersion of nanoparticles using the available protocols rarely leads to stable and uniform dispersions which, in turn, raises concerns about the validity, repeatability and comparability of the findings observed in vitro. Moreover, the ability to control the final dispersion quality of ceramic nanoparticles is an essential step to obtaining optimized nanoceramic materials with desired functionality and to enhancing their performance in subsequent applications. While the need to have a comprehensive guideline for the dispersion of nanoparticles has led to several published documents and protocols, the dispersion methodology of ceramic nanoparticles and the relative contribution of the experimental parameters to the quality of resulting dispersion are still not clear. Here, we employed the statistical design of experiment (DoE) approach to systematically assess the magnitude and source of variation in dispersion quality of two different ceramic nanoparticles, hydroxyapatite and tricalcium phosphate. Using the first-order Plackett-Burman Design (PBD), nanoparticle concentration, pH and the presence of an additive were identified as the most critical factors influencing the resulting hydrodynamic size and zeta potential of the ceramic nanoparticles. Optimization using a second-order Central Composite Design (CCD) yielded a set of quadratic regression equations that were used to predict the hydrodynamic size or zeta potential of ceramic nanoparticles with high accuracy (R2, 0.88–0.92). The results of PBD screening and CCD optimization experiments were employed to prepare nanoparticle dispersions of different quality, which were then used to compare the effect of aggregation on the viability of human osteosarcoma (SaOS-2) cells. Overall, the results of this study provided insight into the role that various experimental parameters play in the colloidal stability and dispersion of ceramic nanoparticles. © 2023Article Citation - WoS: 11Citation - Scopus: 12An Improved Passive Tuned Mass Damper Assisted by Dual Stiffness(Elsevier, 2023) Roozbahan, Mostafa; Turan, GürsoyA tuned mass damper (TMD) is one of the oldest and most commonly used passive control devices attached to structures to absorb lateral loads of energy from main systems. In the last decades, several novel tuned mass dampers have been designed to increase the performance of TMDs in decreasing the structural responses during excitation vibrations. Moreover, several formulations and numerical optimization methods have been developed to optimize the TMDs parameters. This paper proposes a novel passive tuned mass damper with dual stiffness (DSTMD). The DSTMD includes mass, primary and secondary springs, dashpot, and motion limiting chamber. The performance of DSTMDs depends on their properties such as mass, primary and secondary stiffness, damping coefficient, and the length of the motion limiting chamber. Thus, a metaheuristic optimization algorithm, called the Mouth Brooding Fish algorithm, was used to optimize the DSTMDs parameters. The effectiveness of the optimum DSTMD on two different linear ten-story structures under several earthquakes has been studied and compared with the effectiveness of classical optimum TMDs. According to the study, optimum DSTMDs generally show better effects for certain excitations, and as an average performance, they are superior compared to the classical optimum TMDs in reducing maximum displacement of the buildings. At last, structural yielding is considered, and the performance analysis on this structure shows that the DSTMD has a superior effect in reducing the maximum displacement and is among the best methods for the calculated absolute yielding amount.Article Citation - WoS: 27Citation - Scopus: 34Multi-Zone Optimisation of High-Rise Buildings Using Artificial Intelligence for Sustainable Metropolises. Part 2: Optimisation Problems, Algorithms, Results, and Method Validation(Pergamon-Elsevier Science LTD, 2021) Ekici, Berk; Kazanasmaz, Zehra Tuğçe; Turrin, Michela; Taşgetiren, M. Fatih; Sarıyıldız, I. SevilHigh-rise building optimisation is becoming increasingly relevant owing to global population growth and urbanisation trends. Previous studies have demonstrated the potential of high-rise optimisation but have been focused on the use of the parameters of single floors for the entire design; thus, the differences related to the impact of the dense surroundings are not taken into consideration. Part 1 of this study presents a multi-zone optimisation (MUZO) methodology and surrogate models (SMs), which provide a swift and accurate prediction for the entire building design; hence, the SMs can be used for optimisation processes. Owing to the high number of parameters involved in the design process, the optimisation task remains challenging. This paper presents how MUZO can cope with an enormous number of parameters to optimise the entire design of high-rise buildings using three algorithms with an adaptive penalty function. Two design scenarios are considered for quad-grid and diagrid shading devices, glazing type, and building-shape parameters using the setup, and the SMs developed in part 1. The optimisation part of the MUZO methodology reported satisfactory results for spatial daylight autonomy and annual sunlight exposure by meeting the Leadership in Energy and Environmental Design standards in 19 of 20 optimisation problems. To validate the impact of the methodology, optimised designs were compared with 8748 and 5832 typical quad-grid and diagrid scenarios, respectively, using the same design parameters for all floor levels. The findings indicate that the MUZO methodology provides significant improvements in the optimisation of high-rise buildings in dense urban areas.Article Citation - WoS: 22Citation - Scopus: 22Multiparameter-Based Product, Energy and Exergy Optimizations for Biomass Gasification(Elsevier, 2021) Çağlar, Başar; Tavşancı, Duygu; Bıyık, EmrahThe thermodynamic modelling of biomass gasification was studied by using Gibbs free energy minimization approach. Different from the studies using the same approach, the simultaneous presence of all gasifying agents (air, H2O and CO2) was considered and a multiparameter optimization was applied to determine the synergetic effect of gasifying agents for hydrogen, syngas with a specific H2/CO ratio and methane production. The performance of gasification was assessed by using technical and environmental performance indicators such as product yields, cold gas efficiency, exergy efficiency, CO2 emission and the heat requirement of the gasifier. The results show that the simultaneous presence of gasifying agents does not create considerable changes in syngas yield, H2 yield, methane yield, CGE and exergy efficiency while it allows to tune the H2/CO ratio and the heat requirement of the gasifier. The highest syngas yield is observed at T > 1100 K and 1 bar and when SBR > 0.5 and/or CBR > 0.8 with the absence of air, at which CGE changes between 114% and 122% while exergy efficiency is between 77% and 86%. The results prove that CO2 offers several advantages as a gasifying agent and suggests that CO2 recycling from gasifier outlet is a useful option for the biomass gasification.
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