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: 2Citation - Scopus: 2Determination of Retrorsine in Thyme Via Molecularly Imprinted Electrochemical Sensor: Validation and Comparison With Chromatographic Technique(Elsevier Sci Ltd, 2025) Tunc-Ata, Melek; Akturk, Ezgi Zekiye; Njjar, Muath; Kaya, Ahmet; Akdogan, Abdullah; Onac, CananPyrrolizidine alkaloid (PA) toxicity is a growing public health concern, especially with rising herbal product use during the pandemic, highlighting the need for accurate exposure data. Retrorsine (RTS), a retronecine-based PA, is highly toxic, causing liver damage, mutagenicity, and DNA cross-linking through metabolic activation. In the light of the need for a practical alternative to monitor pyrrolizidine alkaloid contamination in herbal products, a molecularly-imprinted-polymer sensor (MIPs-GCE) was used for exploring the electrochemical behavior of RTS electrochemical behavior using cyclic voltammetry and the selective detection of RTS using square wave voltammetry. The sensor demonstrated a linear-detection range of 0.05-2 nM, with a LOD of 0.02869 nM. The sensor's accuracy was validated by analyzing thyme samples, detecting RTS concentrations of 0.5168 and0.5345 nM with RSD of 2.4 % and 1.9 %. These results closely aligned LC-MS/MS values of 0.5142 and 0.5267 nM, confirming the sensor's precision. The sensor demonstrated high selectivity, low detection limits, and practical applicability, ensuring reliable and efficient RTS detection in the presence of twenty-eight different PA compounds. This study introduces a novel, reliable, and straightforward method for detecting PAs, with a specific focus on RTS, offering an enhancement to existing analytical techniques and presenting a complementary alternative in chromatographic applications such as LC-MS/MS, HPLC and GC-MS.Article Citation - WoS: 2Citation - Scopus: 3Unlocking the Biological Potential of Emulsion-Templated Matrices Through Surface Engineering for Biomedical Applications(Elsevier Sci Ltd, 2025) Sert, Emircan; Ozmen, Ece; Owen, Robert; Dikici, Betul AldemirEmulsion templating is a highly advantageous route for the fabrication of porous materials, enabling the development of matrices with high porosity, high interconnectivity, and precise morphological control. Synthetic polymers are most widely used in the fabrication of emulsion-templated tissue engineering scaffolds due to their superior mechanical strength, ease of fabrication, control over polymer properties, and batch-to-batch stability. The biological response is strongly associated with the surface properties of the biomaterials; however, scaffolds constructed from synthetic polymers often lack cell recognition sites and exhibit limited bioactivity. Thus, synthetic polymer-based porous matrices commonly require surface post-modification to improve cell adhesion, proliferation, migration, gene expression, and differentiation processes. To date, extensive work has been carried out investigating surface modification of scaffolds fabricated via traditional scaffold fabrication techniques. Still, studies addressing the post-modification of emulsion-templated matrices are comparatively limited despite an exponential increase in the number of publications on emulsion templating for tissue engineering in recent years. This review will first examine the fundamentals of emulsion templating, then describe cell adhesion and the characteristics of scaffolds that influence cell-material interactions. It will then provide a comprehensive analysis of surface modification techniques and recent advancements in surface-modified emulsion-templated matrices for tissue engineering applications. Finally, we address the challenges and future directions in this rapidly evolving field. We anticipate that this comprehensive literature review will present the current state-of-the-art and serve as a valuable roadmap for researchers seeking to enhance the biological performance of their emulsion-templated scaffolds through surface modifications. Such scaffold optimisation strategies not only improve cell-material interactions but also hold translational potential for advancing human healthcare through more effective regenerative therapies.Article Citation - WoS: 1Citation - Scopus: 2Scalable Growth of Optically Uniform Mows2 Alloys by Sulfurization of Ultrathin Mo/W Stacks(Elsevier Sci Ltd, 2025) Panasci, Salvatore Ethan; Schiliro, Emanuela; Koos, Antal; Kutlu, Tayfun; Sahin, Hasan; Roccaforte, Fabrizio; Giannazzo, FilippoTwo-dimensional (2D) transition metal dichalcogenides (TMDs) ternary alloys, such as MoxW1-xS2, are very appealing for the possibility of continuously tuning their excitonic bandgap by the composition. However, the deposition of ultra-thin (monolayers or few-layers) alloys with laterally uniform composition on large area represents a main challenge of currently adopted synthesis methods. In this work, we demonstrated the growth of highly uniform Mo0.5W0.5S2 bi-layers on cm2 size SiO2/Si substrates by employing a simple and scalable approach, i.e. the sulfurization of a pre-deposited ultra-thin Mo/W stack at a temperature of 700 degrees C. Comparison of Mo(1.2 nm)/SiO2, W(1.2 nm)/SiO2, and Mo(1.2 nm)/W(1.2 nm)/SiO2 samples after identical sulfurization conditions revealed very different results, i.e. (i) a uniform monolayer (1L) MoS2 film, (ii) separated multilayer WS2 islands, and (iii) a uniform bilayer (2L) Mo0.5W0.5S2 film. This indicates how W surface diffusion and coalescence on SiO2 surface plays a main role in WS2 islands formation, whereas the reaction between S vapour with Mo films or Mo/W stacks represents the dominant mechanism for the formation of MoS2 and the MoWS2 alloy. Micro-photoluminescence (PL) mapping of the obtained 2L-Mo0.5W0.5S2 film showed an excellent uniformity of light emission on large area with an exciton peak at 1.97 eV, significantly blue-shifted with respect to PL emission of 1L-MoS2 at 1.86 eV. Such highly uniform optical properties make the grown MoWS2 alloy very promising for optoelectronic applications.Article Citation - WoS: 4Citation - Scopus: 4Surface Modification Via Alkali Treatment and Its Effect on the Physicochemical and Biological Properties of Emulsion Templated Scaffolds(Elsevier Sci Ltd, 2025) Kocagoz, Mehmet; Tihminlioglu, Funda; Dikici, Betul AldemirEmulsion templating is an advantageous scaffold fabrication technique that provides high interconnectivity, high porosity, and control of the scaffold architecture. Polymerised emulsions with an internal phase ratio greater than 74 % are named Polymerised High Internal Phase Emulsions (PolyHIPEs). Polycaprolactone (PCL) is a synthetic, biodegradable, and biocompatible polymer widely used in tissue engineering, but the material-cell interaction of PCL-based biomaterials has been found to be limited due to the material's high hydrophobicity. This study aims to develop emulsion-templated polycaprolactone tetramethacrylate (4PCLMA)-based scaffolds and improve their biological performance using an alkaline surface modification method. For this purpose, 4PCLMA was successfully synthesised, and highly porous scaffolds were developed. PolyHIPEs were incubated in three different sodium hydroxide (NaOH) concentrations for three different incubation times. Chemical, morphological, mechanical characterisation, mass loss, water absorption capacity, water contact angle, Brunauer-Emmett-Teller analyses and biological investigations were conducted on NaOH-treated scaffolds in comparison with the control. The chemical changes induced by NaOH treatment in PolyHIPEs were confirmed by Fourier-transform infrared spectroscopy. NaOH treatment increased the water absorption capacity, hydrophilicity, surface area, and protein adsorption but decreased the weight and mechanical strength of the scaffolds. In vitro results showed that NaOH treatment did not cause cytotoxicity in L929 cells and positively affected the cell adhesion and proliferation behaviour of Saos-2 cells. This study suggests surface modification of biodegradable synthetic polymer-based PolyHIPEs by NaOH treatment as a simple, scalable and cost-effective approach to enhance cell-material interactions of the material without causing a significant change in the overall morphology, contributing to the advancement of next-generation healthcare technologies.Article Citation - WoS: 1Citation - Scopus: 1Plasma-Enhanced Cvd Synthesis and Cytotoxic Evaluation of Graphitic Carbon Embedded – Fe3O4 Nanoparticles(Elsevier Sci Ltd, 2025) Balci-Cagiran, Ozge; Mertdinc-Ulkuseven, Siddika; Solati, Navid; Onbasli, Kubra; Yagci-Acar, Havva; Agaogullari, DuyguThis study reports the synthesis of graphitic carbon embedded - Fe3O4 nanoparticles using a novel method that enables a low-temperature rapid process and includes cytotoxicity tests to evaluate their potential use in biomedical applications. In this study, graphitic carbon was grown on Fe3O4 core using a plasma-enhanced chemical vapor deposition (PE-CVD) system under an Ar-H-2-CH4 gas plasma at 650 degrees C for 15 min. X-ray diffractometry (XRD) and Raman spectroscopy investigations confirmed that Fe3O4 nanoparticles were embedded in graphitic carbon (Fe3O4@C). Scanning electron microscopy (SEM) and energy-dispersive X-ray spectroscopy (EDS), along with transmission electron microscopy (TEM) equipped with EDS, also supported the carbon formation and nano-sized structure of the synthesized particles. Fe3O4@C nanoparticles exhibited soft magnetic properties with saturation magnetization (M-s) and coercivity (H-c) values of 69.27 emu/g and 97 Oe, respectively. Cytotoxicity assessment on HeLa and MCF7 cancer cells suggested biocompatibility at and below a dose of 100 mu g/mL after 24 h of exposure but a drop in cell viability at higher doses and longer incubation times, more on cancer cell lines than the healthy L929 cells. These results suggest that Fe3O4@C nanoparticles might be potential candidates for biomedical applications, including drug delivery, photothermal therapy, and magnetically-triggered operations.Article Citation - WoS: 1Citation - Scopus: 1A Novel Ml-Dem Algorithm for Predicting Particle Motion in Rotary Drums(Elsevier Sci Ltd, 2025) Kazemi, Saman; Zarghami, Reza; Mostoufi, Navid; Sotudeh-Gharebagh, Rahmat; Al-Raoush, Riyadh I.The discrete element method (DEM) is a widely used approach for studying the behavior of particles in industrial equipment, including rotary drums. Although DEM is highly accurate and efficient, it suffers from the computational cost in simulations. The primary objective of this research is to reduce the computational costs of DEM by introducing a novel machine learning (ML) approach based on a deep neural network for predicting particle behavior in rotary drums. The proposed approach utilizes a continuous convolution operator in a neural network. To evaluate its effectiveness, the results of the proposed ML-DEM approach were compared quantitatively and qualitatively with the experimental data and the conventional DEM results. It was shown that in addition to its high accuracy, the proposed approach reduces the computational costs by approximately 35 % and 65 % compared to the conventional DEM simulations on GPU and CPU (with 8 processors), respectively. Furthermore, to ensure the comprehensive and independent validation of the proposed algorithm, the study investigated the effects of various parameters such as drum rotational speed and fill ratio on lateral entropy-based mixing, circulation time, and velocity profile in the active layer. The results were then compared with those obtained using the conventional DEM and found to be in good agreement. This new algorithm can serve as a starting point for reducing computational costs in simulating particle motion in granular systems.Article Citation - WoS: 2Citation - Scopus: 2Surface Sediments as a Sink and Risk Source for Legacy Pops During Waste Management Practices(Elsevier Sci Ltd, 2025) Demirtepe, HalePersistent organic pollutants (POPs) such as polychlorinated biphenyls (PCBs) and polybrominated diphenyl ethers (PBDEs) are globally recognized contaminants due to their persistence, bioaccumulative properties, and toxicity. Despite regulatory efforts, these compounds continue to enter the environment through improper waste management practices, including shipbreaking activities. This study investigates the PCB and PBDE contamination of marine sediments along a 30 km coastline in Aliaga, T & uuml;rkiye, involving one of the world's largest shipbreaking yards. Sixteen surface sediment samples were analyzed for 46 PCB and 23 PBDE congeners. The results revealed Sigma 46PCBs ranging from 5.17 to 4750 ng/g and Sigma 23PBDEs from non-detectable to 5053 ng/g. Shipbreaking activities exhibited the highest concentrations, while the sediments sampled close to beaches had the lowest POP contamination. Source apportionment using principal component analysis (PCA) identified distinct contamination patterns, associating higher-chlorinated PCBs with shipbreaking and lower-chlorinated PCBs and PBDEs with land-based industrial emissions and urban runoff. Ecological risk evaluation showed that most sediment samples exceeded sediment quality guidelines, with some PCB and PBDE congeners posing moderate to high risks to benthic ecosystems. Particularly, PCBs 28 and 52 exhibited low to high risk for almost all sediment samples. This study emphasizes the urgent need for improved waste management practices, particularly for POP-containing materials, to mitigate ecological risks. Shipbreaking yards are identified as hotspots for legacy POP contamination, necessitating international collaboration and stricter enforcement of environmental regulations as shipbreaking operations encompass cross-country transfer of wastes. Findings highlight the critical importance of remediation strategies to protect marine environments.Article Citation - WoS: 1Citation - Scopus: 1Investigating the Behavior of D-Glucose, D-Fructose, and D-Allulose in Aqueous Media by Molecular Dynamics Simulations(Elsevier Sci Ltd, 2025) Bugday, Zinnur Yagmur; Bayramoglu, Beste; Oztop, Halil MecitIsomeric monosaccharides may have different hydration behaviors, leading to distinct physicochemical properties in solutions. In this work, the aqueous behavior, structure, and hydration properties of D-allulose, Dglucose, and D-fructose were investigated as a function of concentration by molecular dynamics simulations. This is the first computational study investigating D-allulose compared to its two isomers. The dynamics were analyzed through self-diffusion coefficients; hydration was characterized by hydrogen bond (HB) analyses. Radial distribution functions were used to probe water structuring around sugar oxygens. Results show the hydration number and the fraction of bound water in solution were the highest for glucose, followed by fructose and allulose. The C3 epimerization of fructose into allulose highly promotes the allulose pyranoses to form intramolecular HBs, significantly limiting their water-holding capacity. This may possibly explain the favorability of furanose forms over pyranose forms in aqueous allulose solutions, opposing glucose and fructose in solution.Article Citation - WoS: 3Citation - Scopus: 3Assessment of Seismic Liquefaction and Structural Instability in Adiyaman-Golbasi After the February 6, 2023, Earthquakes in Türkiye(Elsevier Sci Ltd, 2025) Ecemis, Nurhan; Dalgıç, Korhan Deniz; Donmez, Cemalettin; Karaman, Mustafa; Karaman, Mustafa; Dönmez, Cemalettin; Valizadeh, Hadi; Ecemiş, Nurhan; Dalgic, Korhan DenizTwo earthquakes, Mw = 7.8 Kahramanmaras,-Pazarcik, and Mw = 7.6 Elbistan, occurred on February 6, 2023, approximately 9 h apart. These earthquakes caused devastating effects in a total of 11 nearby cities on the east side of T & uuml;rkiye (Adana, Adiyaman, Diyarbakir, Elazig, Gaziantep, Hatay, Kahramanmaras,, Kilis, Malatya, Osmaniye, and S,anliurfa) and the north side of Syria. These earthquakes provided an outstanding prospect to observe the effects of liquefaction in silty sand and liquefaction-like behavior in clays (cyclic softening) on the stability of structures. This paper specifically presents the post-earthquake reconnaissance at three sites and evaluations of four buildings within these sites in Adiyaman Province, Golbas, i District. First, important role of post-earthquake piezocone penetration test (CPTu) in characterizing the subsurface conditions was presented. Then, the effect of soil liquefaction and cyclic softening on the performance of four buildings during the earthquakes was evaluated. These structures represent the typical new reinforced concrete buildings in T & uuml;rkiye with 3 to 6-story, situated on shallow (raft) foundations, and demonstrated diverse structural performances from full resilience to moderate and extensive damage during the aforementioned earthquakes. Based on the interim findings from these sites, the potential factors that caused moderate to severe damage to buildings were inspected, and preliminary-immediate insights were presented on the relationship between structural design, soil properties, and the performance of buildings with shallow foundations.Article Citation - WoS: 5Citation - Scopus: 5Investigating the Impact of Sprouting on Starch Properties of Wheat Flour and Non-Linear Rheological Behavior of Bread Dough(Elsevier Sci Ltd, 2025) Berk, Berkay; Glaue, Selale Oncu; Bayram, Ozge Yildiz; Unluturk, SevcanThis study investigated the physical and technological properties of the sprouted refined (SR), sprouted whole (SW) and unsprouted refined (UR) wheat flours to explore their potential in bread production. The effects of sprouting on the starch properties, including molecular weight, amylase activity, pasting, and crystallinity, were examined. Rheological properties were measured using farinograph, extensograph, and mixograph instruments. Then, a mixture design was used to optimize the flour blends for bread dough formulation. The non-linear rheological properties of the dough samples prepared by these flour blends were analyzed using large amplitude oscillatory shear (LAOS) test. Molecular weight (UR: 669.6 kDa and SR: 390.4 kDa) and the falling number (UR: 485.5 s, SR: 132 s and SW: 62 s) decreased with sprouting. The water absorption of UR and SR were similar (55 and 54 %), but SW had higher water absorption being 61%. The mixograph peak torque (UR: 78.3 %Tq, SR: 63.6 %Tq and SW: 57.4 %Tq) values decreased with sprouting. Comparison of the optimum blends with commercial counterparts in bread dough production was conducted by principal component analysis (PCA) using different rheological properties (GL, eta L,S, and T) at different strain values. The results showed that using a blend of 50.5% UR, 48.5% SR, and 1% SW, as well as 5.1% UR, 51.3% SR, and 43.6% SW, in bread dough formulation resulted in non-rheological properties similar to those of their commercial counterparts: refined bread flour and whole wheat bread flour.
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