WoS İndeksli Yayınlar Koleksiyonu
Permanent URI for this collectionhttps://hdl.handle.net/20.500.12573/394
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Article GenShare: A Blockchain-Based Genomic Data Sharing Platform(Association for Computing Machinery, 2026-01-27) Dedeturk, B.A.; Soran, A.; Bakir-Güngör, B.Every day, hundreds of gigabytes of data are produced due to the exponential growth of next-generation sequencing and omics technologies. By combining omics data with other data types, such as electronic health record data, panomics research is actively attempting to uncover novel and potentially useful biomarkers. For the effective analysis of high-throughput-derived omics data, it is imperative to establish robust and reliable platforms that prioritize ethical considerations while effectively managing privacy, ownership concerns, and the responsible sharing of data. The GenShare model was proposed to provide an efficient platform that fits these needs. GenShare is a hybrid platform that utilizes blockchain technology. Paillier’s homomorphic encryption scheme in tandem with Intel Software Guard Extension (SGX) serves to enable the sharing of genomic data, execution of count queries, and statistical analysis of genomic data while preserving privacy and avoiding compromise of sensitive information. The objective of this paradigm is to confront security and privacy concerns through the integration of homomorphic encryption and SGX, addressing additional challenges associated with Hyperledger Fabric and Ethereum. In pursuit of this objective, the implementation of the system involved establishing the Hyperledger Fabric network, with various workloads employed to assess the network’s efficiency. Consequently, it was hypothesized that the new GenShare model would enhance the data collection and dissemination cycle and serve as a proficient platform catering to the needs of its users. © 2026 Copyright held by the owner/author(s).Article Citation - WoS: 1Citation - Scopus: 1Photoluminescent Carbon Dots for Sensitive and Selective Cu2+ Ion Detection(Institute of Physics, 2026-01-07) Sahin-Tiras, K.; Karabel Ocal, S.; Mutlugün, E.; Sahin Tiras, KevserGreen-emitting carbon dots (CDs) were synthesized via a solvent-free, vacuum-assisted method using citric acid and urea. The CDs exhibited strong photoluminescence and served as selective, sensitive probes for Cu2+ detection in water, with a detection limit of 26 nM. Among the tested metal ions, Cu2+ induced the most significant PL quenching. Time-resolved photoluminescence measurements of the CDs in the presence of Cu2+ ions revealed a minimal change in lifetime, despite a significant decrease in PL intensity, along with unchanged UV-vis absorption, indicating a mixed quenching mechanism. The sensor’s applicability was confirmed in raisin extract and tea infusion, showing notable PL suppression. With their simplicity, selectivity, and sensitivity, these CDs offer promising potential as nanosensors for detecting Cu2+ in environmental and real-world analytical settings. © 2026 The Author(s). Published by IOP Publishing Ltd.Article CRISPR/Cas9-mediated Metabolic Engineering of Endophytic Pseudomonas Loganensis Sp. Nov. for the Production of Nutritionally Valuable Carotenoids(American Chemical Society, 2026-01-02) Arslansoy, N.; Karaman, M.Z.; Fidan, O.Carotenoids with significant nutritional and antioxidant properties have been widely utilized in the food, feed, pharmaceutical, and cosmetic industries. They improve the nutritional value of foodstuffs and have been used as natural food colorants. However, their current supply chain is mainly dependent on extraction from plants and chemical synthesis, both of which have bottlenecks, including environmental concerns, toxicity, and allergenicity. To address global demand for sustainable and environmentally friendly production of nutrients, we engineered the endophytic Pseudomonas loganensis sp. nov. as a niche microbial chassis for nutritionally valuable carotenoid production. Using CRISPR-Cas9, we knocked out key carotenogenic genes to construct strains capable of producing zeaxanthin, lycopene, and β-carotene. Additionally, an overexpression plasmid was introduced to produce astaxanthin. HPLC analysis confirmed the successful production of four target carotenoids. The culture conditions and media compositions were optimized using response surface methodology, resulting in a ∼5-fold increase in the titers of zeaxanthin (13.4 mg/L), lycopene (9.67 mg/L), and β-carotene (23.53 mg/L), and a ∼12-fold increase in astaxanthin titer (1 mg/L) compared to LB medium without optimization. Our results indicate the potential of endophytic bacteria as a microbial chassis for carotenoid bioproduction, underscoring the potential of synthetic biology to contribute to global efforts toward nutritional security and sustainable food systems. © 2026 The Authors. Published by American Chemical SocietyErratum Correction to “Multifaceted Effects of the Dielectric Component within Plasmon-Assisted Light-Emitting Structures”(American Chemical Society, 2025-12-17) Kulakovich, O.; Muravitskaya, A.; Ramanenka, A.; Efimova, T.; Krukov, V.; Mutlugün, E.; Gaponenko, S.In the original version of the article, the affiliation of Hilmi Volkan Demir needs following correction. The first affiliation of the author “Department of Electrical-Electronics Engineering, Abdullah Gul University, Kayseri 38080, Turkey” should be replaced by the affiliation “UNAM – Institute of Materials Science and Nanotechnology and The National Nanotechnology Research Center and Department of Electrical and Electronics Engineering, Department of Physics, Bilkent University, Ankara 06800, Turkey”. Therefore, the correct affiliations for H.V.D. are “UNAM – Institute of Materials Science and Nanotechnology and The National Nanotechnology Research Center and Department of Electrical and Electronics Engineering, Department of Physics, Bilkent University, Ankara 06800, Turkey; LUMINOUS! Center of Excellence for Semiconductor Lighting and Displays, School of Electrical and Electronic Engineering, School of Physical and Mathematical Sciences, School of Materials Science and Engineering, Nanyang Technological University, Singapore 639798, Singapore”. © 2025 American Chemical SocietyArticle Colloidal Photodetectors Based on Engineered Multishelled InP Based Quantum Dots(Institute of Physics, 2026-01-08) Akrema; Erol, E.; Savaş, M.; Yazici, A.; Erdem, T.; Mutlugün, E.; Faruk Yazıcı, AhmetIn this work, we present a straightforward and cost-effective approach to synthesize multi-shell InP/ZnSe/ZnSeS/ZnS quantum dots (QDs) that show promising potential for use in photodetectors. By carefully layering ZnSe, ZnSeS, and ZnS shells around an InP core, we were able to enhance the stability and optical performance of the QDs, achieving a narrow emission peak of 45 nm and a high photoluminescence quantum yield of 55%. These QDs were then integrated into simple photodetector devices, which possessed impressive sensitivity and detection capabilities. Specifically, our devices achieved a peak responsivity of 0.54 A W−1 and a detectivity of 2.22 × 1011 Jones at 400 nm with a 5 V bias. This study highlights the potential of InP-based QDs as a safer and more sustainable alternative to traditional QDs that contain toxic heavy metals, offering a viable path forward for developing high-performance optoelectronic devices. Our findings suggest that these InP/ZnSe/ZnSeS/ZnS QDs could be a key material for the next generation of high-performance optoelectronic devices, especially in applications that require highly sensitive and stable photodetectors. © 2026 The Author(s). Published by IOP Publishing Ltd.Conference Object Shooting a Water Slug Into an Air Column with and without Vent(Amer Soc Mechanical Engineers, 2025-07-20) Bozkus, Zafer; Dincer, Ali Ersin; Tijsseling, Arris S.; van de Ven, FonsCompressed air is used to shoot a single water slug into an upward sloping pipe with elbow and orifice at its upper end. The experiment concerns a 12 m long pipe of 0.1 m diameter connected to a 0.5 m3 air vessel. The 10 to 50 kg heavy slugs are initially at rest in the lower part of the system. Because the upper end is closed by a flange with orifice, the water slug is expected not to hit the upstream elbow. It causes - like a piston - a fast compression of the air column ahead of it. Sometimes the slug bounces back and forth, which results in a pressure oscillation of serious amplitude. Numerical simulations based on an elementary mathematical model are normally used to interpret the pressure measurements, not all of which are fully understood. Lessons learned are summarised, and suggestions for improved experiments and enhanced simulations are given. The research is of importance, for example, for steam lines where liquid condensates may collect in lower parts after power failure. Start-up of the system will then lead to rapid slug acceleration and potentially damaging impact on elbows, orifices, and machinery.Conference Object Security Through Digital Twin-Based Intrusion Detection: A Swat Dataset Analysis(IEEE, 2023-10-18) Bozdal, MehmetDigital twin, as a virtual replica of physical entity, offer valuable insights into Industrial Control System (ICS) behavior and characteristics. Leveraging the convergence of digital twins and cybersecurity, this research explores its role in securing critical infrastructure, using the Secure Water Treatment (SWaT) system as a case study. Existing intrusion detection systems (IDS) for SWaT encounter challenges related to requiring huge amounts of a dataset for training, being unable to adopt high data dimensionality, and adaptability to emerging threats. To address these issues, a hybrid digital twin model is proposed, combining physics-based models and data-driven approaches. This model facilitates precise attack localization and explainable IDS outcomes. The method exhibits promising capabilities for enhancing critical infrastructure security and adapting to evolving cyber threats. Experimental results demonstrate the ability to detect eight out of nine attack types.Article Citation - WoS: 4Citation - Scopus: 3Multifaceted Effects of the Dielectric Component Within Plasmon-Assisted Light-Emitting Structures(American Chemical Society, 2025-10-23) Kulakovich, O.; Muravitskaya, A.; Ramanenka, A.; Efimova, T.; Krukov, V.; Mutlugün, E.; Gaponenko, S.Plasmon-enhanced photoluminescence of molecular probes and semiconductor nanocrystals is a rapidly developing field that promises enhanced sensitivity in chemical and biomedical analyses, as well as higher efficiency of light-emitting devices and single-photon sources. The dielectric component, or spacer, is typically used to control the distance between the emitter and the plasmonic nanoparticle in order to decrease undesirable nonradiative energy transfer to the metal and achieve high enhancement efficiency. While most research focuses on the shape and organization of the plasmonic nanoparticles, less attention is given to the role of the dielectric component in plasmon-enhancing structures. Meanwhile, the dielectric shell or environment critically modulates near-field enhancement, far-field scattering, charge and energy exchange between the emitter and the plasmonic structure, and the general environmental stability of the structure. In this review, we discuss all mentioned topics and therefore consider both the optical and chemical influence of the widely used spacers and dielectric layers on plasmon-enhanced photoluminescence efficiency. Investigating the role of individual components in plasmon-assisted light-emitting structures is critical for optimizing device performance and for advancing the integration of plasmonic architectures in optoelectronic and sensing applications. This review challenges the passive interpretation of dielectrics, revealing them as one of the key players in plasmonic structures, mediating field enhancement, emission dynamics, and chemical stability simultaneously. © 2025 American Chemical SocietyArticle Citation - WoS: 1Citation - Scopus: 1An Ultra-Low Fabric Capacitive Glove for Real-Time Motion Tracking and Human–computer Interaction(Institute of Physics, 2025-11-04) Başıbüyük, Y.; Mutluç, M.N.; Şavur, Ö.; İçöz, K.This study presents the development of a wearable glove system that integrates ultra-low-cost, fabric-based capacitive sensors for motion detection and human–computer interaction. The system combines touch and bend sensors fabricated from commercially available silver-coated fabric and silicone acrylic tape, enabling real-time tracking of finger movements via measurable capacitance changes. The glove translates physical gestures into digital commands, facilitating intuitive control in virtual environments. Experimental evaluation demonstrated stable operation across a wide pressure range (10–200 g, equivalent to 1.25–25 kPa), with an unnormalized sensitivity of ∼0.00504 pF g−1 (∼0.0040 pF kPa−1), corresponding to a normalized sensitivity of ∼0.0067 kPa−1 when referenced to the baseline capacitance (C<inf>0</inf> ≈ 6 pF). The device exhibited high repeatability over 4000 loading cycles, and minimal signal variation (coefficient of variation, CV < 0.005). Integration with a Unity-based interface enabled low-latency gesture tracking in real time. Each sensor was fabricated for less than $0.05 using simple, scalable methods, without nanomaterials or cleanroom processing. Owing to its affordability, fabrication simplicity, and mechanical robustness, the proposed glove system provides a practical and scalable platform for wearable motion tracking, with strong potential in rehabilitation, assistive technologies, and interactive systems. © 2025 IOP Publishing Ltd. All rights, including for text and data mining, AI training, and similar technologies, are reserved.Article Citation - WoS: 2Citation - Scopus: 2Measuring Eudaimonic and Hedonic Wellbeing: Development and Validation of the Holistic Wellbeing Measure(Routledge, 2025-10-09) Arslan, G.; Coşkun, M.The primary goal of this study was to develop a concise, theoretically grounded tool –the Holistic Wellbeing Measure (HWM)– that captures both hedonic and eudaimonic facets of wellbeing. Items for the HWM were generated through a careful review of existing wellbeing scales and literature, followed by expert consultation, pilot testing, and iterative refinement to ensure conceptual coverage, clarity, and face validity. Data were collected from three distinct samples: adolescents (n = 453), young adults (n = 361), and adults (n = 358). Exploratory and confirmatory factor analyses supported a two-factor structure, with 12 items reflecting independent but related hedonic and eudaimonic wellbeing dimensions. The measure demonstrated strong internal reliability and evidence of convergent, discriminant, and concurrent validity across all age groups. Regression analyses further indicated that the HWM contributed unique variance to the prediction of general health indicators (physical, social, and mental health) and psychological problems (depression, anxiety, and somatization), above the effects of gender, age, and psychological wellbeing. These results suggest that the HWM is a valid and reliable measure for assessing both aspects of wellbeing across age groups and can support strategies aimed at promoting overall mental health. © 2025 Taylor & Francis Group, LLC.