PubMed İndeksli Yayınlar Koleksiyonu / PubMed Indexed Publications Collection
Permanent URI for this collectionhttps://hdl.handle.net/11147/7645
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Article Citation - WoS: 8The Effects of Halofuginone on Wound Healing in the Rat Nasal Mucosa(Sage Publications Inc, 2020) Ceylan, Seyit Mehmet; Uysal, Erdal; Sokucu, Mehmet; Sezgin, Efe; Kanmaz, Mahmut Alper; Yurtseven, Duygu Gok; Bilal, NagihanBackground Halofuginone is an alkaloid febrifugine analogue and bioactive molecule that was isolated incidentally from the Dichroa febrifuga plant. The therapeutic efficacy of halofuginone in parasitic infections, scleroderma, inflammation, and fibrosis-related diseases, as well as in some types of cancer, has been previously reported. The effects of halofuginone on nasal mucosal damage are not yet known. Objective The aim of this study was to investigate the potential effect of topically applied halofuginone on wound healing in the mechanically injured nasal mucosa of rats. Methods A unilateral mucosal wound was created in the nasal cavity of 32 rats (aged 4 weeks) using the brushing technique. These rats were randomly divided into 4 groups. Although the control group did not receive an intervention, a dry pad, a saline-impregnated pad, or a pad impregnated with halofuginone were placed in the rats of the other 3 groups and left for 5 minutes. Rats were sacrificed on the 14th day, and a histological examination was performed. The nasal mucosa was assessed via hematoxylin-eosin and Masson's trichrome staining. Results There were no statistically significant differences in epithelial thickness, inflammation, goblet cell formation, and epithelial disarray values between the halofuginone group and the control group (P > .05). The subepithelial thickness was significantly decreased in the saline-treated group and the halofuginone-treated group (P < .05), but a significantly lower level of subepithelial fibrosis was only observed in the halofuginone group compared to the other groups (P < .05). Conclusions Topical halofuginone administration reduces the development of fibrosis and subepithelial edema after experimentally induced nasal mucosal injury, but it does not exert therapeutic or preventive effects on epithelial damage, inflammation, and goblet cell hyperplasia.Article A Fiber-Driven Finite Element Model for Predicting Residual Limb Soft Tissue Deformation: Applications in Prosthetic Socket Design(Springer, 2025) Wang, Ling; Qiu, Ziyan; Tang, Lei; Huang, Fuhao; Wei, Pingping; Mihcin, Senay; Li, DichenPurposeChanges in residual limb volume and shape pose significant challenges in achieving and maintaining an accurate and comfortable fit for prosthetic socket. While numerous techniques for measuring residual limb volume have been proposed, their clinical application remains limited by insufficient resolution and the inability to perform in-socket measurements. To address this issue, this study develops a novel method for predicting residual limb soft tissue deformation to guide prosthetic socket design.MethodsA three-dimensional (3D) finite element (FE) model of the human thigh was developed to simulate the soft tissue deformation during daily activities, driven by muscle contraction to replicate natural biomechanics. The model included hard tissue and muscle components, with the muscle modeled as a structure of evenly distributed, contractile fibers that generate movement. Parameters controlling fiber contraction were iteratively adjusted to best match the calculated tissue deformation and that observed in physical muscle models.ResultsThe optimized FE model significantly improved the accuracy of predicting dynamic soft tissue deformation, with average errors of 0.83% and 1.86% for tissue expansion and contraction regions, respectively. For various gait patterns, the average differences in equivalent volume and cross-sectional area changes were also less than 0.83% and 1.86%, respectively.ConclusionThe model demonstrated consistent prediction accuracy across different gait data. The fiber-driven soft tissue model developed offers a valuable tool for pre-design simulations of prosthetic sockets and orthoses. It is equally applicable to other wearable devices that interface with the skin, providing a robust framework for improving device design and functionality.Article Nanoencapsulation of Hydroxytyrosol Extract of Fermented Olive Leaf Brine Using Proniosomes(Wiley, 2025) Kadiroglu, Pinar; Kilincli, Betul; Ilgaz, Ceren; Bayindir, Zerrin Sezgin; Kelebek, Hasim; Helvacioglu, Selin; Ozhan, GunesBACKGROUND: Olive leaves are rich in bioactive compounds with potential health benefits; however, their limited bioavailability and stability hinder their effective utilization. Emerging technologies, nanocarrier-based delivery systems, have shown promise in enhancing these properties. RESULTS: The optimal conditions for proniosome formulation were 50 rpm rotational speed and 35 degrees C, achieving 81.20 +/- 0.80% encapsulation efficiency. Particle sizes ranged from 188.6 to 248.9 nm, with a zeta potential of similar to-30 mV, indicating high stability and resistance to aggregation. Advanced instrumental analysis confirmed interactions between the extract and proniosome components. After 30 days at 4 degrees C, extract-loaded proniosomes maintained better homogeneity and lower polydispersity index. Cytotoxicity studies showed that both the extract and its proniosomal form were nontoxic to HEK293T cells up to 200 mu g mL(-1). In zebrafish assays, minimal larval mortality was observed up to 3200 mu g mL(-1) for the extract, while no mortality occurred up to 1600 mu g mL(-1) for the proniosomal extract, highlighting its improved safety profile. CONCLUSION: The findings from this research could contribute to the advancement of sustainable and health-promoting food innovations by integrating cutting-edge nanotechnology-driven encapsulation strategies into plant-based food formulations. (c) 2025 Society of Chemical Industry.Article Citation - WoS: 3Citation - Scopus: 3A Novel MIP Electrochemical Sensor Based on a CuFe2O4NPs@rGO Nanocomposite and Its Application in Breast Milk Samples for the Determination of Fipronil(Royal Soc Chemistry, 2025) Njjar, Muath; Akturk, Ezgi Zekiye; Kaya, Ahmet; Onac, Canan; Akdogan, AbdullahBackground: fipronil, a widely utilized insecticide in agriculture, has been shown to have potential health implications as it can accumulate in the environment and affect human health. Electrochemical sensors, specifically those incorporating molecularly imprinted polymers (MIPs), provide an efficient way for the detection of fipronil because of their selectivity and specificity. The combination of CuFe2O4NPs and reduced graphene oxide (rGO) exhibits a synergistic effect that enhances sensitivity and selectivity. The composite's effective properties provide a robust platform for fipronil determination in various matrices. This study detected fipronil using an electrochemical sensor based on a glassy carbon electrode (GCE) modified with MIP@CuFe2O4NPs@rGO. Results: the synthesized MIP@CuFe2O4NPs@rGO material was characterized using various techniques such as Fourier transform infrared (FT-IR) spectroscopy, scanning electron microscopy (FESEM), X-ray diffraction (XRD) analysis, energy dispersive X-ray (EDX) analysis, Brunauer-Emmett-Teller (BET) analysis, X-ray photoelectron spectroscopy (XPS) analysis, and electrochemical impedance spectroscopy (EIS). The modified GCE showed enhanced electrochemical behavior for fipronil, as demonstrated by cyclic voltammetry (CV) and square wave voltammetry (SWV) techniques. Optimization of parameters such as pH, pyrrole concentration, and template concentration further improved sensor performance. The sensor exhibited a linear dynamic range of 1 to 6 nM, with a limit of detection (LOD) of 0.30 nM (S/N = 3) and a limit of quantification (LOQ) of 1.08 nM (S/N = 10), highlighting its sensitivity and reliability. The precision of the method was excellent, with a relative standard deviation of less than 4.0%. When applied to quantify fipronil in breast milk samples, the sensor showed high accuracy and precision, with recoveries ranging from 96.24% to 97.75%. Significance: the sensor offers several advantages, including high sensitivity, specificity, and accuracy. Its ability to detect fipronil in complex matrices such as breast milk highlights its potential for real-world applications in environmental and health monitoring. Overall, this research paves the way for the development of efficient, rapid and eco-friendly sensors for detecting pesticide residues in various environmental and biological samples.Article Citation - WoS: 1Citation - Scopus: 1Phase-Dependent Optical, Photocatalytic and Capacitive Properties of Tungsten Oxide Nanowires(Royal Soc Chemistry, 2025) Kahraman, Zeynep; Gungor, Ahmet; Buldu-Akturk, Merve; Tan, Metin; Alp, Emre; Erdem, Emre; Genc, AzizTransition metal oxides hold great promise across a wide range of applications due to favorable properties such as high abundance, low toxicity, and excellent stability. Nanoengineering approaches are essential for controlling the structural, optical, and electronic properties of these materials, enabling the achievement of desired characteristics in a cost-effective and environmentally friendly manner. In this study, we synthesize stoichiometric (WO3) and sub-stoichiometric (WO3-x) tungsten oxide nanowires by controlling their phases and morphologies through the hydrothermal method. This approach allows us to systematically investigate the effects of different phases and oxygen vacancies on the optical properties, as well as on photocatalytic and supercapacitance applications. We use the photodegradation of RhB as a benchmark for photocatalytic activity under various experimental conditions, revealing that oxygen vacancies significantly influence photocatalytic behavior. For example, WO3-x nanowires adsorb/degrade a substantial amount of RhB within short durations under ambient conditions, where WO3 nanowires are mostly inactive. The addition of H2O2 enhances the photocatalytic performance of WO3 nanowires over 30 minutes, with even better results under low pH conditions with H2O2. This study also explores the phase-dependent electrochemical properties of WO3 and WO3-x nanowires, providing insights into their potential for improved supercapacitor performance by leveraging their complementary properties in symmetric and asymmetric configurations. WO3-x, with a higher density of oxygen vacancies and thinner structure, offers enhanced conductivity and increased active sites for charge storage, resulting in superior specific capacitance and charge retention.Article Long-Term Outcomes of Türkiye's First Population-Based Mammography Screening Program: a Decade of Breast Cancer Detection and Survival Analysis in Bahçeşehir(Bmc, 2025) Ozcinar, Beyza; Aribal, Erkin; Cabioglu, Neslihan; Gurdal, Sibel Ozkan; Varol, Gamze; Akyurt, Nuran; Ozmen, VahitBackgroundThe Bah & ccedil;e & scedil;ehir population-based mammography screening program (BMSP) is an example of T & uuml;rkiye's first population-based screening program. This study aims to reveal the successful implementation of population-based secreening program in one of the low- and middle-income countries, T & uuml;rkiye and long-term results of patients diagnosed with breast cancer during BMSP. MethodsThis study was conducted between 2009 and 2019, in the Bah & ccedil;e & scedil;ehir county of Istanbul. Women between the ages of 40 and 69 living in this region were invited every two years to undergo clinical breast examination (CBE) and mammography screening. All data was recorded in a dedicated software program. Women diagnosed with breast cancer were followed as a separate cohort. ResultsDuring the 10-year screening period, 8,825 women were screened and 146 (1.7%) breast cancers were detected. The median age at diagnosis for these patients was 52.9 years (40-69). The risk of breast cancer was 1.39 times higher (95% CI: 1.01-1.93) in women aged >= 50 compared to those less than 50 years (p = 0.045). The Cox regression analysis revealed that age at first birth, and number of births were significant predictors of breast cancer risk (p < 0.001, and p = 0.011). The breast cancer rate tends to increase as the breast density category progresses from A to D (p < 0.001). The median follow-up time for 146 breast cancer patients was 95.3 months. The 10-year breast cancer specific survival rate was 85%. ConclusionsThis study demonstrates that with a committed team and sufficient infrastructure, screening mammography can be effectively carried out in T & uuml;rkiye, leading to early detection and lower mortality rates. The recommended age to commence screening is 40 years old.Article Citation - WoS: 1Citation - Scopus: 1Calcium Indicators With Fluorescence Lifetime-Based Signal Readout: a Structure-Function Study(MDPI, 2024) Simonyan, Tatiana R.; Varfolomeeva, Larisa A.; Mamontova, Anastasia V.; Kotlobay, Alexey A.; Gorokhovatsky, Andrey Y.; Bogdanov, Alexey M.; Boyko, Konstantin M.The calcium cation is a crucial signaling molecule involved in numerous cellular pathways. Beyond its role as a messenger or modulator in intracellular cascades, calcium's function in excitable cells, including nerve impulse transmission, is remarkable. The central role of calcium in nervous activity has driven the rapid development of fluorescent techniques for monitoring this cation in living cells. Specifically, genetically encoded calcium indicators (GECIs) are the most in-demand molecular tools in their class. In this work, we address two issues of calcium imaging by designing indicators based on the successful GCaMP6 backbone and the fluorescent protein BrUSLEE. The first indicator variant (GCaMP6s-BrUS), with a reduced, calcium-insensitive fluorescence lifetime, has potential in monitoring calcium dynamics with a high temporal resolution in combination with advanced microscopy techniques, such as light beads microscopy, where the fluorescence lifetime limits acquisition speed. Conversely, the second variant (GCaMP6s-BrUS-145), with a flexible, calcium-sensitive fluorescence lifetime, is relevant for static measurements, particularly for determining absolute calcium concentration values using fluorescence lifetime imaging microscopy (FLIM). To identify the structural determinants of calcium sensitivity in these indicator variants, we determine their spatial structures. A comparative structural analysis allowed the optimization of the GCaMP6s-BrUS construct, resulting in an indicator variant combining calcium-sensitive behavior in the time domain and enhanced molecular brightness. Our data may serve as a starting point for further engineering efforts towards improved GECI variants with fine-tuned fluorescence lifetimes.Article Citation - WoS: 5Citation - Scopus: 6Beyond Lux: Methods for Species and Photoreceptor-Specific Quantification of Ambient Light for Mammals(Bmc, 2024) McDowell, Richard J.; Didikoğlu, Altuğ; Didikoglu, Altug; Woelders, Tom; Gatt, Mazie J.; Moffatt, Finn; Notash, Saba; Lucas, Robert J.BackgroundLight is a key environmental regulator of physiology and behaviour. Mistimed or insufficient light disrupts circadian rhythms and is associated with impaired health and well-being across mammals. Appropriate lighting is therefore crucial for indoor housed mammals. Light is commonly measured in lux. However, this employs a spectral weighting function for human luminance and is not suitable for 'non-visual' effects of light or use across species. In humans, a photoreceptor-specific (alpha-opic) metrology system has been proposed as a more appropriate way of measuring light.ResultsHere we establish technology to allow this alpha-opic measurement approach to be readily extended across mammalian species, accounting for differences in photoreceptor types, photopigment spectral sensitivities, and eye anatomy. We develop a high-throughput method to derive spectral sensitivities for recombinantly expressed mammalian opsins and use it to establish the spectral sensitivity of melanopsin from 13 non-human mammals. We further address the need for simple measurement strategies for species-specific alpha-opic measures by developing an accessible online toolbox for calculating these units and validating an open hardware multichannel light sensor for 'point and click' measurement. We finally demonstrate that species-specific alpha-opic measurements are superior to photopic lux as predictors of physiological responses to light in mice and allow ecologically relevant comparisons of photosensitivity between species.ConclusionsOur study presents methods for measuring light in species-specific alpha-opic units that are superior to the existing unit of photopic lux and holds the promise of improvements to the health and welfare of animals, scientific research reproducibility, agricultural productivity, and energy usage.Article Citation - WoS: 5Citation - Scopus: 6A Comparative Study of Metaheuristic Feature Selection Algorithms for Respiratory Disease Classification(MDPI, 2024) Gürkan Kuntalp, D.; Özcan, N.; Düzyel, Okan; Kababulut, F.Y.; Kuntalp, M.The correct diagnosis and early treatment of respiratory diseases can significantly improve the health status of patients, reduce healthcare expenses, and enhance quality of life. Therefore, there has been extensive interest in developing automatic respiratory disease detection systems. Most recent methods for detecting respiratory disease use machine and deep learning algorithms. The success of these machine learning methods depends heavily on the selection of proper features to be used in the classifier. Although metaheuristic-based feature selection methods have been successful in addressing difficulties presented by high-dimensional medical data in various biomedical classification tasks, there is not much research on the utilization of metaheuristic methods in respiratory disease classification. This paper aims to conduct a detailed and comparative analysis of six widely used metaheuristic optimization methods using eight different transfer functions in respiratory disease classification. For this purpose, two different classification cases were examined: binary and multi-class. The findings demonstrate that metaheuristic algorithms using correct transfer functions could effectively reduce data dimensionality while enhancing classification accuracy. © 2024 by the authors.Article Citation - WoS: 1Citation - Scopus: 1Optimization of Biotransformation Processes of <i>camarosporium Laburnicola</I> To Improve Production Yields of Potent Telomerase Activators(Bmc, 2024) Kuecueksolak, Melis; Coban, Hasan Bugra; Bedir, ErdalBackground Telomerase activators are promising agents for the healthy aging process and the treatment/prevention of short telomere-related and age-related diseases. The discovery of new telomerase activators and later optimizing their activities through chemical and biological transformations are crucial for the pharmaceutical sector. In our previous studies, several potent telomerase activators were discovered via fungal biotransformation, which in turn necessitated optimization of their production. It is practical to improve the production processes by implementing the design of experiment (DoE) strategy, leading to increased yield and productivity. In this study, we focused on optimizing biotransformation conditions utilizing Camarosporium laburnicola, a recently discovered filamentous fungus, to afford the target telomerase activators (E-CG-01, E-AG-01, and E-AG-02). Results DoE approaches were used to optimize the microbial biotransformation processes of C. laburnicola. Nine parameters were screened by Plackett-Burman Design, and three significant parameters (biotransformation time, temperature, shaking speed) were optimized using Central Composite Design. After conducting validation experiments, we were able to further enhance the production yield of target metabolites through scale-up studies in shake flasks (55.3-fold for E-AG-01, 13-fold for E-AG-02, and 1.96-fold for E-CG-01). Conclusion Following a process optimization study using C. laburnicola, a significant increase was achieved in the production yields. Thus, the present study demonstrates a promising methodology to increase the production yield of potent telomerase activators. Furthermore, C. laburnicola is identified as a potential biocatalyst for further industrial utilization.