Scopus İndeksli Yayınlar Koleksiyonu / Scopus Indexed Publications Collection
Permanent URI for this collectionhttps://hdl.handle.net/11147/7148
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Book Part Computational Approaches for Antibody-Based Drug Design(Institute of Physics Publishing, 2024) Gunes, S.; Arkca, I.; Atik, S.B.; Ulucan-Karnak, F.; Sezgin, H.T.; Uyar, A.This chapter includes various aspects of antibodies with a major emphasis on computational tools in antibody design. In this scope, current antibody databases, computational tools, and approaches for modelling antibodies and nanobodies, the structure, and interface prediction are analyzed. On the other hand, various antibody design techniques such as grafting, the significance of antibody-drug conjugates, and how computational methods contribute to the development of therapeutic antibodies are discussed with relevant strategies in the literature. Lastly, the production cost and the rising market value of antibodies are emphasized. © IOP Publishing Ltd 2023. All rights reserved.Article A Novel Technique Using Integral Transforms and Residual Functions for Nonlinear Partial Fractional Differential Equations Involving Caputo Derivatives(Public Library of Science, 2024) Khan, Z.A.; Riaz, M.B.; Liaqat, M.I.; Akgül, A.Fractional nonlinear partial differential equations are used in many scientific fields to model various processes, although most of these equations lack closed-form solutions. For this reason, methods for approximating solutions that occasionally yield closed-form solutions are crucial for solving these equations. This study introduces a novel technique that combines the residual function and a modified fractional power series with the Elzaki transform to solve various nonlinear problems within the Caputo derivative framework. The accuracy and effectiveness of our approach are validated through analyses of absolute, relative, and residual errors. We utilize the limit principle at zero to identify the coefficients of the series solution terms, while other methods, including variational iteration, homotopy perturbation, and Adomian, depend on integration. In contrast, the residual power series method uses differentiation, and both approaches encounter difficulties in fractional contexts. Furthermore, the effectiveness of our approach in addressing nonlinear problems without relying on Adomian and He polynomials enhances its superiority over various approximate series solution techniques. © 2024 Khan et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.Article Citation - WoS: 6Citation - Scopus: 6Effect of the Synthesis Method and Particle Size on Bczt Electrocaloric Properties(Pergamon-elsevier Science Ltd, 2025) Temel, Helin; Avci, Tubanur; Okatan, M. Baris; Alkoy, Sedat; Misirlioglu, I. Burc; Mensur, EbruIn this study, the electrocaloric properties of BCZT ceramics fabricated through different processing methods: solid-state and sol-gel were investigated. The calcination process was done for BCZT powders obtained by sol-gel process at 900 degrees C for 2 h and by solid-state calcination method at 1200 degrees C for 6 h. BCZT-SG ceramics exhibited higher Delta T values, particularly at lower temperatures (similar to 0 degrees C-20 degrees C), and a stronger response to the electric field, suggesting a more efficient domain structure due to sol-gel processing. Notably, BCZT-SGH samples demonstrated the most complex and pronounced electrocaloric behavior, with dual Delta T peaks around 0 degrees C and 50 degrees C, and the highest Delta T of 2.5 K at 80 kV/cm and 50 degrees C, surpassing values in the literature. Especially, high Delta T results at 0 degrees C allows using this material in the extreme conditions. These results emphasize the significant role of processing techniques in tailoring the structural, dielectric, and electrocaloric properties of BCZT ceramics for high-performance energy applications.Article Citation - WoS: 5Citation - Scopus: 7Targeting the Panoptosome Using Necrostatin-1 Reduces Panoptosis and Protects the Kidney Against Ischemia-Reperfusion Injury in a Rat Model of Controlled Experimental Nonheart-Beating Donor(Elsevier Science inc, 2024) Dokur, Mehmet; Uysal, Erdal; Kucukdurmaz, Faruk; Altinay, Serdar; Polat, Sait; Batcioglu, Kadir; Yeni, Sema Nur DokurPurpose. Reducing renal ischemia is crucial for the function and survival of grafts from non- heartbeat donors, as it leads to inflammatory responses and tubulointerstitial damage. The primary concern with organs from nonheartbeat donors is the long warm ischemia period and reperfusion injury following renal transplantation. This study had two main goals; one goal is to determine how Necrostatin-1 targeting the PANoptosome affects PANoptosis in the nonheartbeating donor rat model. The other goal is to fi nd out if Necrostatin-1 can protect the kidney from ischemic injury for renal transplantation surgery. Methods. Twenty-four rats were grouped randomly as control and Necrostatin-1 in this experimental animal study, and we administered 1.65 mg/kg of Necrostatin-1 intraperitoneally to the experimental group for 30 minutes before cardiac arrest. We removed the rats' left kidneys and measured various oxidative stress marker measures such as malondialdehyde, superoxide dismutase, catalase, GPx, and 8-hydroxy-2-deoxyguanosine levels. We then subjected the tissues to immunohistochemical analysis, electron microscopy, and histopathological analysis. Findings. The Necrostatin-1 group had a lower total tubular injury score (P < .001) and less Caspase-3, gasdermin D, and mixed lineage kinase domain-like protein expression. Additionally, the apoptotic index of the study group was lower (P < .001). Furthermore, the study group had higher levels of superoxide dismutase and GPx (P < .05), whereas malondialdehyde levels were reduced (P = .009). Electron microscopy also revealed a significant improvement in tissue structure in the Necrostatin-1 group. Conclusion. Necrostatin-1 protects against ischemic acute kidney injury in nonheart-beating donor rats by inhibiting PANoptosis via the blockade of RIPK1. As a result of this, Necrostatin1 may offer novel opportunities for protecting donor kidneys from renal ischemia-reperfusion injury during transplantation in patients with end-stage kidney disease requiring a renal transplantation.Correction Diaph1-Deficiency Is Associated With Major T, Nk and Ilc Defects in Humans (vol 44, 175, 2024)(Springer/plenum Publishers, 2025) Azizoglu, Zehra Busra; Babayeva, Royala; Haskologlu, Zehra Sule; Acar, Mustafa Burak; Ayaz-Guner, Serife; Okus, Fatma Zehra; Eken, Ahmet[No Abstract Available]Article An Interior Inverse Generalized Impedance Problem for the Modified Helmholtz Equation in Two Dimensions(Wiley-v C H verlag Gmbh, 2025) Yaman, Olha Ivanyshyn; Ozdemir, GaziWe consider the inverse interior problem of recovering the surface impedances of the cavity from sources and measurements placed on a curve inside of it. The uniqueness issue is investigated, and a hybrid method is proposed for the numerical solution. The approach takes advantages of both direct and iterative schemes, such as it does not require an initial guess and has an accuracy of a Newton-type method. Presented numerical experiments demonstrate the feasibility and effectiveness of the approach.Article Citation - WoS: 5Citation - Scopus: 5Light-Induced, Liquid Crystal-Templated Fabrication of Large-Area Pure Nanoporous Gold Films With High-Density Plasmonic Cavities(Amer Chemical Soc, 2024) Orhan, Ozan Baran; Polat, Nahit; Demir, Seren; Balci, Fadime Mert; Balci, SinanNanoporous gold (NPG) films are three-dimensional gold (Au) frameworks characterized by a uniform distribution of nanoscale irregular pores. Typically produced via a dealloying process, where the less noble silver (Ag) is selectively etched out, NPG films offer a large surface area, excellent chemical stability, remarkable catalytic activity, unique optical properties, and biocompatibility. These attributes make them invaluable for applications in catalysis, plasmonics, biosensors, and nanophotonics. However, the presence of residual Ag from the dealloying process can limit their performance in certain applications. In this study, we report a novel method for the fabrication of ultrapure, large-area NPG films (several cm2) using a light-induced and liquid crystal-templated method. A hexagonal lyotropic liquid crystal containing a strong acid and a nonionic surfactant is combined with an aqueous solution of HAuCl4, followed by the photochemical synthesis of gold nanoparticles (NPs) within the liquid crystal. After calcination of the Au NP-containing liquid crystal film at high temperature, pure NPG films are produced. We demonstrate surface-enhanced Raman spectroscopy (SERS) of Rhodamine 6G (R6G) molecules adsorbed on the NPG films and detect extremely low concentrations (below 10-6 M) of R6G. Additionally, we thoroughly investigated the formation and optical properties of the NPG films. The results reveal that the ultrapure NPG films contain high-density plasmonic nanocavities, where substantial electromagnetic fields are generated, leading to significant enhancement of optical processes at nanoscale dimensions.Editorial Iwsm-Mensura 2024 Proceedings Preface(CEUR-WS, 2024) Trudel, S.; Demirors, O.; Moulla, D.K.; Hacaloglu, T.[No abstract available]Book Part Investigating the Adhesion Problem of a Double-Sided Tape and Car Bumper Packing Materials(Apple Academic Press, 2024) Balköse, D.; Cihanoğlu, G.; Kirköse, S.; Karabiyik, M.; Olcay, A.N.Pressure-sensitive adhesives (PSAs) are viscoelastic materials with permanent stickiness, and can adhere strongly to solid surfaces upon application of slight contact pressure under a relatively short contact time. The adhesion problem of double-sided adhesive to packing films of car bumpers was investigated by analyzing the flexible adhesive layer and two alternative packing films. The films were blue in color and one of them was opaque and the other one was transparent. Scanning electron microscopy (SEM), Fourier transfer infrared (FTIR) spectroscopy were used to characterize the samples. Water contact angle and roughness of surfaces were also determined. It was shown that the film with high surface roughness and high water contact angle adhered better to the flexible adhesive layer. © 2025 by Apple Academic Press, Inc.Book Citation - Scopus: 1Physics and Mechanics of New Materials: Synthesis, Processing, and Emerging Applications(Apple Academic Press, 2024) Balkose, D.; Ribeiro, A.C.F.; Kalarikkal, N.; Abraham, A.R.; Haghi, A.K.This new volume covers new advances in materials science and engineering technology, focusing on practical rather than theoretical aspects that are useful for the design, fabrication, testing, and industrial application of advanced materials and structures. The first section of this book delivers a comprehensive overview of modern ferrites with special attention to their structure, types, and properties. It presents a comprehensive survey on ferrite materials with discussions of selected applications of modern ferrite materials in emerging technologies. In the second section, the impact of technological change upon the application of selected materials and energy resources are presented in detail. This includes discussions on 2D nanomaterials, bismuth ferrite, and barium titanate and how these can be put to practical use. In the last section of this volume, case studies in thermophysics and applied mechanics for engineering technology are presented that provide an examination of the various physical, chemical, and material properties of a range of modern materials. This research-oriented book, Physics and Mechanics of New Materials: Synthesis, Processing, and Emerging Applications, is an essential reference source intended for scientific researchers, faculty, and postgraduate and senior students who specialize in the field of materials science and applied mechanics of materials. © 2025 by Apple Academic Press, Inc.