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: 3Citation - Scopus: 1Porous Polymer-Derived Ceramics for Environmental Applications: Sorption, Filtration, and Catalysis(Elsevier B.V., 2025) Icin, Oyku; Zeydanli, Damla; Biesuz, Mattia; Soraru, Gian Domenico; Vakifahmetoglu, CekdarPolymer-derived ceramics (PDCs), obtained from preceramic polymers, have emerged as promising materials for environmental applications due to their high thermal and chemical stability, tunable nano-microstrucure and porosity, and versatile surface functionalities. This review focuses on the recent advances in porous PDCs and their use in key environmental fields such as sorption, filtration, and catalysis. A comparative analysis of precursor chemistry, synthesis strategies, and resulting structural properties is presented, emphasizing how these factors influence performance in environmental remediation tasks. By consolidating findings across specific application areas, the work aims to clarify the functional potential of PDCs and identify current research gaps and opportunities for future development in environmental material science.Article Citation - WoS: 2Citation - Scopus: 2A Comprehensive Study on the Effectiveness of the Stress and Damage Model Parameters in Predicting the Compression Fracture Behavior of Selective Laser Melted AlSi10Mg BCC Lattices(Elsevier B.V., 2025) Guden, Mustafa; Erten, Hacer Irem; Gorguluarslan, Recep M.; Gulletutan, Umut Can; Dagkolu, Akin; Gokdag, Istemihan; Namazov, SubhanThe Johnson and Cook (JC) stress and damage model parameters determined from the machined bulk cylindrical specimens and as-built struts through tension and compression tests were used to model quasi-static compression behavior of selective laser melt-fabricated AlSi10Mg alloy lattices. The lattices had the same cell size (10 mm) and strut diameter (1 mm), but different number of cells (2 x 2 x 2, 10 x 10 x 2 and 5 x 5 x 5) and geometries (sandwich and cubic). Four different sets of JC damage model parameters (brittle and ductile notch-insensitive and compression and tension notch-sensitive) were further implemented in the lattice compression numerical models. The brittle damage model parameters and smaller mesh sizes resulted in cracking the face-sheet corner strut nodes before the occurrence of a bending-dominated initial peak stress. The notch-sensitive damage model parameters exhibited no bent-strut fracture in the middle layers of the lattices and increased the crack initiation strains as compared with the notch-insensitive damage model parameters. Despite significant variations in the initial peak stresses of the tested 2 x 2 x 2 and 10 x 10 x 2 lattices, the implication of the strut micro-tension stress model together with the compression notch-sensitive damage model parameters using 0.25 mm mesh size conservatively approximated the experimental deformation stresses while the machined bulk specimen tensionstress model over predicted the experimental stresses. On the other side, the strut stress model with 0.15 mm mesh size accurately predicted the experimental diagonal shear/fracture mode of struts with a slightly higher numerical initial peak stress. The compression tests on the strut specimens extracted from the as-built lattices yielded similar stress model parameters with the micro-tension tests. The differences between the initial peak stresses of the investigated sandwich and cubic lattices were further explained by the differences in the lattice boundary conditions.Article Recent Developments in the Treatment of Leishmaniasis: Natural Compounds, Drug Targets, in Silico Molecular Docking Approaches, and Nanocarriers(Elsevier B.V., 2025) Gürbüz Çolak, N.Leishmaniasis is a common tropical disease caused by Leishmania protozoa. It affects 0.9 to 1.6 million people, causing 20,000–30,000 deaths annually. There are no effective vaccines, and current treatments have severe side effects. Drug resistance is a major obstacle in treating leishmaniasis. The necessity of drug discovery is indisputable. Natural compounds are promising candidates for drug discovery studies because of their diverse chemical structures and bioactivities. Experimental screening of compound libraries imposes high costs and is time-consuming. The molecular docking approach is beneficial for exploring new therapeutics in silico as it allows the screening of millions of drug candidates. Even if new drug candidates are discovered, delivery of the active ingredient to the target remains controversial. Nanocarriers are promising nanosystems that can address the drawbacks of drug delivery. This chapter focuses on natural compounds as drug candidates, targets, in silico drug discovery, and drug delivery for the treatment of leishmaniasis. © 2025 Elsevier Inc.Article Citation - WoS: 4Citation - Scopus: 4Novel Electrospun-Based Extractive Probes for Rapid Determination of Clinically Important Compounds in Human Plasma(Elsevier B.V., 2024) Temel,E.R.; Eroğlu,A.E.; Salih,B.; Boyaci,E.Background: Coated blade spray (CBS) represents an innovative approach that utilizes solid-phase microextraction principles for sampling and sample preparation. When combined with ambient mass spectrometry (MS), it can also serve as an electrospray ionization source. Therefore, it became a promising tool in analytical applications as it can significantly reduce the analysis time. However, the current CBS coatings are based on the immobilization of extractive particles in bulk polymeric glue, which constrains the diffusion of the analytes to reach the extractive phase; therefore, the full reward of the system cannot be taken at pre-equilibrium. This has sparked the notion of developing new CBS probes that exhibit enhanced kinetics. Results: With this aim, to generate a new extractive phase with improved extraction kinetics, poly(divinylbenzene) (PDVB) nanoparticles were synthesized by mini-emulsion polymerization and then immobilized into sub-micrometer (in diameter) sized polyacrylonitrile fibers which were obtained by electrospinning method. Following the optimization and characterization studies, the electrospun-coated blades were used to determine cholesterol, testosterone, and progesterone in plasma spots using the CBS-MS approach. For testosterone and progesterone, 10 ng mL−1 limits of quantification could be obtained, which was 200 ng mL−1 for cholesterol in spot-sized samples without including any pre-treatment steps to samples prior to extraction. Significance: The comparison of the initial kinetics for dip-coated and electrospun-coated CBS probes proved that the electrospinning process could enhance the extraction kinetics; therefore, it can be used for more sensitive analyses. The total analysis time with this method, from sample preparation to instrumental analysis, takes only 7 min, which suggests that the new probes are promising for fast diagnostic applications. © 2024 Elsevier B.V.Article Citation - WoS: 8Citation - Scopus: 7Delignification of Corncob by Choline Chloride-Urea Deep Eutectic Solvent for Enzymatic Production of Xylooligosaccharides(Elsevier B.V., 2024) Yanak,S.; Buyukkileci,A.O.Deep eutectic solvent (DES) pretreatment was applied to corncob to obtain xylooligosaccharides (XOS) by enzymatic hydrolysis using xylanase. Based on the XOS titers in the hydrolysate, urea was the most effective among the hydrogen bond donors tested to couple choline chloride (ChCl). DES pretreatment at 130 °C for two hours with ChCl-Urea (molar ratio of 1:2) containing 40 % water, decreased lignin fraction from 12.8 % to 6.9 %, while 79 % of the xylan was retained in the pretreated corncob. The highest XOS production was obtained using 400 U/g xylanase at 60 °C, which yielded 12.0 g/L XOS with a low degree of polymerization (LDP-XOS). The total XOS yield based on the raw corncob was calculated as 14.4 %, 90 % of which was LDP-XOS. The cellulose-rich residual biomass could be hydrolyzed enzymatically to glucose with 65 % cellulose digestibility. The discarded biomass after hydrolyzes was 21.7 % of the raw material. The results showed that DES was a promising pretreatment for enhancing enzymatic XOS production. © 2024 Elsevier B.V.Article Citation - WoS: 13Citation - Scopus: 12Dunaliella Salina Microalgae Aqueous Extract-Based Magnetic Nanoparticles (fe3o4-Nps): Green Synthesis, Characterization and in Vitro Anticancer Investigations(Elsevier B.V., 2024) Jafari,N.; Hamishehkar,H.; Mohammadpourfard,M.In the current study, a facile, rapid, and eco-friendly method was provided for green synthesizing of magnetic Fe3O4-NPs with enhanced stability and biocompatibility using different weight concentrations (1 %, 3 %, and 5 %) of aqueous extract of Dunaliella salina (D. salina) microalgae. The properties of the green-synthesized magnetic nanoparticles (GMNPs-ex1%, GMNPs-ex3%, and GMNPs-ex5%) were compared with chemically-synthesized ones (CMNPs) via XRD, TEM, FESEM, VSM, DLS, ZP, FTIR, hemolysis, cell viability, DAPI staining, and apoptosis analyses. TEM imaging revealed mean sizes of 11.21 ± 2.63 nm and 14.08 ± 3.24 nm for GMNPs-ex5% and CMNPs, respectively, with better dispersity for GMNPs-ex5%, as confirmed with their polydispersity index (PDI = 0.24 for GMNPs-ex5% and 0.58 for CMNPs). These sizes were consistent with the crystallite size of pure magnetite phase nanoparticles obtained from XRD. FESEM images confirmed spherical shape for the majority of nanoparticles. FTIR spectra confirmed the involvement of functional groups from the extract in GMNPs, contributing to their stability (ZP of GMNPs-ex5% = −34 mV). The saturation magnetization decreased with increasing the extract ratio (from 62.41 to 8.94 emu/g), attributed to the non-magnetic nature of the extract coating. GMNPs-ex5% exhibited a negligible hemolysis rate (< 2 %) compared to CMNPs. Furthermore, IC50 values of GMNPs and extract against HFF-2 and A549 cells were higher than those of CMNPs, indicating the biocompatibility of green-synthesized nanoparticles. In the DAPI staining method, GMNPs-ex5%, similar to the extract, caused less DNA damage to HFF-2 cells. Additionally, the apoptosis assay using annexin V/PI staining kit indicated that green-synthesized nanoparticles induced lower apoptosis in normal cells. Overall, this study highlights the potential of green-synthesized Fe3O4-NPs for various biomedical applications, showcasing their enhanced properties and biocompatibility compared to conventionally synthesized counterparts. © 2024 Elsevier B.V.Article Effects of Edge Addition or Removal on the Nullity of a Graph(Elsevier B.V., 2024) Batal,A.Lights Out is a game which can be played on any graph G. Initially we have a configuration which assigns one of the two states on or off to each vertex. The aim of the game is to turn all vertices to off state for an initial configuration by activating some vertices where each activation switches the state of the vertex and all of its neighbors. If the aim of the game can be accomplished for all initial configurations then G is called always solvable. We call the dimension of the kernel of the closed neighborhood matrix of the graph over the field Z2, nullity of G. It turns out that G is always solvable if and only if its nullity is zero. Moreover, the number of solutions of a given configuration is also determined by the nullity. We investigate the problem of how nullity changes when an edge is added to or removed from a graph. As a result we show that for every graph with positive nullity there exists an edge whose removal decreases the nullity. Conversely, we show that for every always solvable graph which is not an even graph with odd order, there exists an edge whose addition increases the nullity. We also show that if an always solvable graph is not even, then there is an edge whose removal increases the nullity. © 2024Article Citation - WoS: 10Citation - Scopus: 11Arabinoxylan-Based Psyllium Seed Hydrocolloid: Single-Step Aqueous Extraction and Use in Tissue Engineering(Elsevier B.V., 2024) Yildirim-Semerci,Ö.; Bilginer-Kartal,R.; Arslan-Yildiz,A.Biomacromolecules derived from natural sources offer superior biocompatibility, biodegradability, and water-holding capacity, which make them promising scaffolds for tissue engineering. Psyllium seed has gained attention in biomedical applications recently due to its gel-forming ability, which is provided by its polysaccharide-rich content consisting mostly of arabinoxylan. This study focuses on the extraction and gelation of Psyllium seed hydrocolloid (PSH) in a single-step water-based protocol, and scaffold fabrication using freeze-drying method. After characterization of the scaffold, including morphological, mechanical, swelling, and protein adsorption analyses, 3D cell culture studies were done using NIH-3 T3 fibroblast cells on PSH scaffold, and cell viability was assessed using Live/Dead and Alamar Blue assays. Starting from day 1, high cell viability was obtained, and it reached 90 % at the end of 15-day culture period. Cellular morphology on PSH scaffold was monitored via SEM analysis; cellular aggregates then spheroid formation were observed throughout the study. Collagen Type-I and F-actin expressions were followed by immunostaining revealing a 9- and 10-fold increase during long-term culture. Overall, a single-step and non-toxic protocol was developed for extraction and gelation of PSH. Obtained results unveiled that PSH scaffold provided a favorable 3D microenvironment for cells, holding promise for further tissue engineering applications. © 2024 Elsevier B.V.Article Citation - WoS: 4Citation - Scopus: 4Automating Modern Code Review Processes With Code Similarity Measurement(Elsevier B.V., 2024) Kartal,Y.; Akdeniz,E.K.; Özkan,K.Context: Modern code review is a critical component in software development processes, as it ensures security, detects errors early and improves code quality. However, manual reviews can be time-consuming and unreliable. Automated code review can address these issues. Although deep-learning methods have been used to recommend code review comments, they are expensive to train and employ. Instead, information retrieval (IR)-based methods for automatic code review are showing promising results in efficiency, effectiveness, and flexibility. Objective: Our main objective is to determine the optimal combination of the vectorization method and similarity to measure what gives the best results in an automatic code review, thereby improving the performance of IR-based methods. Method: Specifically, we investigate different vectorization methods (Word2Vec, Doc2Vec, Code2Vec, and Transformer) that differ from previous research (TF-IDF and Bag-of-Words), and similarity measures (Cosine, Euclidean, and Manhattan) to capture the semantic similarities between code texts. We evaluate the performance of these methods using standard metrics, such as Blue, Meteor, and Rouge-L, and include the run-time of the models in our results. Results: Our results demonstrate that the Transformer model outperforms the state-of-the-art method in all standard metrics and similarity measurements, achieving a 19.1% improvement in providing exact matches and a 6.2% improvement in recommending reviews closer to human reviews. Conclusion: Our findings suggest that the Transformer model is a highly effective and efficient approach for recommending code review comments that closely resemble those written by humans, providing valuable insight for developing more efficient and effective automated code review systems. © 2024 Elsevier B.V.Article Citation - WoS: 3Citation - Scopus: 4Caffeic Acid Phenethyl Ester (cape) Chitosan Capped Zno Nanoparticles: Preparation, Characterization, and Its Potential for the Treatment of Prostate Cancer(Elsevier B.V., 2024) İnce,İ.; Yıldırım,Y.; Göker,E.; Güler,G.; Saltan,F.; Acar,R.; Medine,E.İ.The synthesis of zinc oxide nanoparticles/chitosan (ZnONPs/CS) formulation loaded with Caffeic acid phenethyl ester (CAPE) was performed to evaluate its prostate cancer treatment efficiency within the scope of this research. It has been hypothesized that a dual active materials delivery system containing ZnO and CAPE loaded Chitosan (CS) nanoparticles has better bioavailability compared to single one against to cancer cells. ZnONPs were synthesized between 45 and 60 nm particle sizes and then they were capped with CS biodegradable polymer prior to load with CAPE bioactive molecule. ZnONPs/CS-CAPE system was characterized by using Fourier Transform Infrared (FTIR) for structural elucidation, Scanning Electron Microscope (SEM) for particle size determination, High Performance Liquid Chromatography (HPLC) system for determination of CAPE amount. 131I CAPE and 131I ZnONPs/CS-CAPE labeled by the Iodogen method with 131I were used in-vitro cell culture experiments. Cell viabilities (%) of CAPE and ZnONPs/CS-CAPE were examined using Cell Counting Kit-8 assay on PC-3 (human adenocarcinoma prostate), LnCaP (human carcinoma prostate), and RWPE-1 (human normal prostate). IC50 values of ZnONPs /CS -CAPE on all cells were found 2-fold lower than neat CAPE. Based on the FTIR data, the most significant spectral changes (lipid, protein, nucleic acids, glycogen) were monitored for the PC-3 and LnCaP cancer cells incubated with ZnONPs/CS-CAPE samples while being exposed to neat CAPE molecules caused small cellular changes when compared to RWPE-1 healthy cell lines. © 2024
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