Scopus İndeksli Yayınlar Koleksiyonu / Scopus Indexed Publications Collection

Permanent URI for this collectionhttps://hdl.handle.net/11147/7148

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  • Article
    FTIR Spectroscopy Coupled With Chemometrics for Evaluating Functional Food Efficacy in an in Vitro Model of Iron Deficiency Anemia
    (Elsevier Science Ltd, 2026) Dalyan, Eda; Cavdaroglu, Cagri; Ozen, Banu; Gulec, Sukru
    Vibrational spectroscopy offers a rapid, cost-effective approach for studying biological systems. This study employs Fourier Transform Infrared (FTIR) spectroscopy, combined with Soft Independent Modeling of Class Analogy (SIMCA), to evaluate treatment outcomes for iron deficiency anemia (IDA). The model was built using spectra from healthy and anemic cells, then validated with cells treated with commonly used iron supplements. In calibration, 9 of 10 control and all IDA samples were correctly classified; 14 of 15 validation samples were identified as healthy. The model was applied to cells treated with protein-iron complexes. All samples treated with a 60:1 protein-iron ratio matched the healthy group, while 3 of 4 treated with a 10:1 ratio matched the IDA group. These results were further supported by iron-regulated gene expression of transferrin receptor (TFR) and (Ankyrin Repeat Domain 37) ANKRD37. FTIR coupled with chemometrics enables rapid assessment of functional effects and shows potential for screening functional ingredients in anemia-targeted food products.
  • Article
    Application of 3D Cell Culture Techniques in Nanotoxicology: How Far Are We
    (Springer, 2026) Shakeri, Raheleh; Mirjalili, Seyedeh Zohreh; Karakus, Ceyda Oksel; Safavi, Maliheh
    Investigation of toxicological profile and possible side effects of engineered nanomaterials (ENMs) is of high importance. Historically, two-dimensional (2D) cell culture was used to study the toxicity of the ENMs, but due to their inability to simulate in vivo cell behavior, three-dimensional (3D) cell culture systems have been developed. Nanotoxicity studies initiate with in vitro experiments and continue with in vivo studies, which are very challenging and sometimes accompanied by conflicting data due to the in vitro-in vivo gap. Thus, scientists are turning their attention to microfabrication techniques and engineered systems "called organ-on-a-chips", which act as an intermediate between in vivo and in vitro systems. The present account tries to review the classical study models and suitably cover the emerging 3D culture models including scaffold-free and scaffold-based 3D cell cultures, 3D co-culture with direct contact and without cell-cell contact methods as well as microfluidic-based tissue chips and organoids. Overall, this review aims to give readers a better insight about the ENMs' toxicology and fill the gaps between the knowledge and practical techniques. Hopefully, the presented information will resolve the issues of 2D in vitro cultures and display the clinically relevant responses to the concerns of therapeutic ENMs.
  • Article
    AI-Supported Seismic Performance Evaluation of Structures: Challenges, Gaps, and Future Directions at Early Design Stages
    (Elsevier Sci Ltd, 2026) Ak, Fatma; Ekici, Berk; Demir, Ugur
    This study reviews 91 journal articles that intersect with earthquake-resistant building design and artificial intelligence (AI)- based modeling, utilizing machine learning, deep learning, and metaheuristic optimization algorithms. Previous reviews on AI applications have examined engineering problems without considering the impact of architectural design parameters and structural irregularities on seismic performance. This review discusses the role of AI in integrating architectural design variables and seismic performance objectives, highlighting challenges, gaps, and future directions in the early design phase. The reviewed articles demonstrate that AI is successful in addressing seismic performance objectives; however, a holistic framework for assessing architectural and structural variables has not been presented. The review highlights key findings, gaps, and future directions for those involved in earthquake-resistant building design utilizing AI.
  • Article
    Sustainable Recovery of Critical Raw Materials From Geothermal Igneous Systems: Geochemical, Mineralogical, and Techno-Economic Insights from the Dikili-Bergama Field (Western Anatolia, Turkiye)
    (Elsevier, 2026) Ayzit, Tolga; Baba, Alper
    The sustainable co-extraction of critical raw materials (CRMs) with renewable geothermal energy offers a dual pathway to support the circular economy and low-carbon transition. In this study, an integrated geochemical and mineralogical approach is used to comprehensively assess the recoverable lithium (Li) boron (B), strontium (Sr) and other critical raw materials in the geothermal reservoirs of the Dikili-Bergama region Turkiye. A geochemical analysis was carried out by systematic sampling and multi-element testing of geothermal water and reservoir rock. Hydrogeochemical studies of the geothermal fluids indicated the presence of remarkable concentrations of B (4.6 ppm), Sr (2.8 ppm) and Li (1.2 ppm), suggesting the possibility of active leaching processes in the deposit. Mineralogical studies using X-ray diffraction (XRD) have revealed a number of secondary mineral phases, such as quartz and labradorite, indicating the interaction between water and rock. These interactions affect not only the permeability and porosity of the deposit, but also the mobilization and precipitation of CRMs. A techno-economic analysis will be used to identify potential synergies that could improve the economic feasibility of geothermal projects in the region. The Monte Carlo simulation has shown that the Dikili-Bergama geothermal reservoirs have a potential of similar to 712 tons of Li. In this study, the CRM potential that emerged during the geothermal energy exploitation process in the region was calculated. The temporality and the process of obtaining are completely related to the extraction technology. This offers the dual benefit of renewable energy and strategic mineral extraction, contributing to sustainable resource management in volcanic environments.
  • Article
    The Effect of Layered Cover Plate Material on the Ballistic Performance of Ceramic Armors: Experimental and Numerical Study
    (Pergamon-Elsevier Science Ltd, 2026) Cellek, Seven Burcin; Tasdemirci, Alper; Cimen, Gulden; Yildiztekin, Faki Murat; Toksoy, Ahmet Kaan; Guden, Mustafa
    This study investigates the ballistic performance of silicon carbide (SiC) ceramic armor systems reinforced with single and hybrid metallic cover plates composed of Ti-6Al-4V (Ti64) and copper. Controlled ballistic experiments combined with validated LS-DYNA simulations were conducted to examine how cover-plate material, thickness, and stacking sequence influence penetration resistance, energy dissipation, and failure mechanisms. The experimental results revealed that metallic cover plates significantly enhance protection by improving projectile erosion and extending dwell time. While both Ti64 and copper single layers increased the antipenetration capability (APC) compared with bare SiC, hybrid configurations achieved the highest performance. The optimal design, consisting of a 2 mm Ti64 plate placed in front of a 1 mm copper plate, produced the greatest reduction in penetration depth and the highest APC value. Numerical analyses closely replicated the experimental trends and provided insight into stress-wave interactions, pressure evolution, and damage progression within the ceramic. The findings demonstrate that hybrid Ti64-Cu systems not only improve initial impact resistance but also redistribute energy toward the front layers, reducing stress transmission to the backing and mitigating catastrophic ceramic failure. The combined experimental and numerical results establish a clear design framework for developing lightweight, high-efficiency ceramic armor through tailored hybrid layering strategies.
  • Article
    Hydrogeochemical Assessment and Health Risks of Groundwater in Sahand Volcanic Foreland (NW Iran): Arsenic Speciation and Heavy Metal Risk Indicators
    (Academic Press Inc Elsevier Science, 2026) Ghayurdoost, Farhad; Zarghami, Mahdi; Sadeghfam, Sina; Jabraili-Andaryan, Nasser; Nikmaram, Sara; Baba, Alper; Mosaferi, Mohammad
    Due to the toxic nature of arsenic (As) and its elevated concentrations in many water resources, numerous studies have focused on understanding its origin, distribution, and impacts. This study aimed to identify the dominant As species in groundwater of the Sahand Volcanic Foothills, assess water quality indices, and examine heavy metal (HM) concentrations to address rising concerns about groundwater contamination. A total of 21 groundwater samples were collected and analyzed in accordance with world health organization (WHO) guidelines. Although most samples fell within acceptable ranges, several (notably S10, S20, and S21) exhibited elevated levels of total dissolved solids (TDS), electrical conductivity (EC), and HMs, particularly iron (Fe) and As. Hydrochemical assessments using Piper, Gibbs, Stiff, and Schoeller diagrams indicated that geochemical processes resulting from rock dissolution were the main factors controlling groundwater chemistry, with limited influence from anthropogenic pollution. According to the groundwater quality index (GWQI), most samples were categorized as "good" to "excellent," though some areas ranged from "moderate" to "very poor." HM pollution indices revealed that As concentrations exceeded permissible limits. Health risk assessments further showed that both oral and dermal exposure posed significant carcinogenic and non-carcinogenic risks, especially for children. Speciation analysis indicated that arsenate (As V) was the dominant form of As, consistent with oxidizing aquifer conditions, and is less biologically hazardous than arsenite (As III). The study highlights the necessity of continuous groundwater monitoring, effective pollution source management, and implementation of protective regulations to mitigate environmental and health risks in the region.
  • Article
    Notum1a Inhibition Promotes Neurogenesis in the Adult Zebrafish Brain
    (Nature Portfolio, 2025) Kocagoz, Yigit; Erdogan, Nuray Sogunmez; Ozdinc, Sevval; Ipekgil, Dogac; Katkat, Esra; Ozhan, Gunes
    Notum is a carboxylesterase enzyme that modulates extracellular signaling by hydrolyzing palmitoleoyl residues from proteins, thereby influencing key pathways involved in cell differentiation, survival, and proliferation. While notum1 expression has been identified in the brain, its role in adult neurogenesis remains poorly understood. Using the adult zebrafish brain as a model system, we demonstrate that the notum1a homolog is broadly expressed across various brain cell types but is absent in undifferentiated radial glial cells. Pharmacological inhibition of Notum activity with the small molecule inhibitor ABC99 stimulates activation of radial glial cells, leading to increased neurogenesis. A BrdU pulse-chase assay confirms that ABC99-induced proliferation enhances the production of mature neurons. Despite Notum's established role in Wnt signaling, transcriptional analysis following ABC99 treatment reveals no sustained impact on Wnt pathway targets, suggesting that Notum may regulate neurogenesis through alternative mechanisms. Our findings highlight notum1a as a potential modulator of neural progenitor cell dynamics in the adult brain and suggest that targeting Notum could represent a novel therapeutic strategy for neurodegenerative conditions characterized by impaired neurogenesis.
  • Article
    Fractionation of Guaiacyl and Syringyl-Lignin Units Using Organic Solvent Nanofiltration
    (Elsevier, 2026) Croes, Tim; Dutta, Abhishek; Van Aelst, Korneel; Sels, Bert; Van der Bruggen, Bart; Cornet, Iris
    A major obstacle to employing the full potential of lignin-based aromatics is the fractionation of the monomers present in lignin, specifically the separation of guaiacyl (G) and syringyl (S) units, which possess nearly identical molecular weights (196 Da versus 166 Da) and dimensions, and identical functional groups. Such similarities make their separation highly challenging using conventional techniques and are generally considered beyond the capabilities of size-based membrane processes. This study examines the feasibility of organic solvent nano-filtration for fractionation of guaiacyl and syringyl units, and how membrane and process parameters affect separation of these two molecules. Sixteen commercially available membranes were tested with methanol and ethyl acetate as solvents. The results demonstrate that, despite the extreme similarity of the solutes, selective separation is achievable and is primarily governed by membrane material and solvent selection rather than the pore size-based molecular weight cut-off. Polyimide-based solvent-resistant membranes exhibited the highest selectivity, with a maximum observed separation factor of 3.33 obtained using a DuraMemTM 500 membrane in methanol. These findings demonstrate the potential of nanofiltration to address previously unresolved separation challenges in lignin valorization and provide a basis for further process development.
  • Article
    Damage Assessment of Structures Following the February 6, 2023 Kahramanmaraş Earthquakes: A Dataset-Based Case Study in Gaziantep, Türkiye
    (Springer Heidelberg, 2025) Atasever, Kurtulus; Aydogdu, Hasan Huseyin; Narlitepe, Furkan; Goksu, Caglar; Demir, Ugur; Demir, Cem; Ilki, Alper
    Following the 2023 Kahramanmara & scedil; Earthquakes (Mw 7.7 and 7.6) that struck T & uuml;rkiye on February 6, 2023, the Ministry of Environment, Urbanization, and Climate Change (MoEUCC) initiated a large-scale post-earthquake damage assessment campaign, targeting more than 2,3 million structures within the affected region. A comprehensive field survey was carried out in and around Gaziantep, one of the most severely affected cities. The authors assessed more than 1700 structures representing a wide range of occupancy types, including residential, educational, healthcare, religious, administrative, industrial, and lodging structures. In this paper, the methodological process of post-earthquake data collection in and around Gaziantep is presented, together with the data on the distribution of damage with respect to construction period, number of stories, and building occupancy type, to ensure a complete understanding of the extent and characteristics of structural damage. The damage assessment employed two data sources: (i) the data gathered through the authors' newly developed, novel damage-assessment software, presented here for the first time, and (ii) the official post-earthquake damage database of the MoEUCC. A further novelty of this study is the presentation of the largest dataset to date for the investigated earthquake doublet, encompassing approximately 1700 buildings. Additionally, the relationship between damage states, peak ground accelerations, and fault distances is thoroughly investigated. The detailed earthquake-hit site investigations revealed that the examined structures displayed structural inadequacies akin to those witnessed in previous seismic events, with a notable focus on the arrangement of the structural system, the quality of construction materials and reinforcement detailing.
  • Article
    Temporal Coherence of Single Photons Emitted by Hexagonal Boron Nitride Defects at Room Temperature
    (Amer Chemical Soc, 2026) Martinez-Pons, Juan Vidal; Kim, Sang Kyu; Behrens, Max; Izquierdo-Molina, Alejandro; Menendez Rua, Adolfo; Pacal, Serkan; Anton-Solanas, Carlos
    Color centers in hexagonal boron nitride (hBN) emerge as promising quantum light sources at room temperature, with potential applications in quantum communications, among others. The temporal coherence of emitted photons (i.e., their capacity to interfere and distribute photonic entanglement) is essential for many of these applications. Hence, it is crucial to study and determine the temporal coherence of this emission under different experimental conditions. In this work, we report the coherence time of the single photons emitted by an hBN defect in a nanocrystal at room temperature, measured via Michelson interferometry. The visibility of this interference vanishes when the temporal delay between the interferometer arms is a few hundred femtoseconds, highlighting that the phonon dephasing processes are 4 orders of magnitude faster than the spontaneous decay time of the emitter. We also analyze the single photon characteristics of the emission via correlation measurements, defect blinking dynamics, and its Debye-Waller factor. Our room temperature results highlight the presence of a strong electron-phonon coupling, suggesting the need to work at cryogenic temperatures to enable quantum photonic applications based on photon interference.