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: 6Citation - Scopus: 5Gelatin-Containing Porous Polycaprolactone Polyhipes as Substrates for 3d Breast Cancer Cell Culture and Vascular Infiltration(Frontiers Media Sa, 2024) Jackson, Caitlin E.; Doyle, Iona; Khan, Hamood; Williams, Samuel F.; Dikici, Betul Aldemir; Ledesma, Edgar Barajas; Claeyssens, FrederikTumour survival and growth are reliant on angiogenesis, the formation of new blood vessels, to facilitate nutrient and waste exchange and, importantly, provide a route for metastasis from a primary to a secondary site. Whilst current models can ensure the transport and exchange of nutrients and waste via diffusion over distances greater than 200 mu m, many lack sufficient vasculature capable of recapitulating the tumour microenvironment and, thus, metastasis. In this study, we utilise gelatin-containing polymerised high internal phase emulsion (polyHIPE) templated polycaprolactone-methacrylate (PCL-M) scaffolds to fabricate a composite material to support the 3D culture of MDA-MB-231 breast cancer cells and vascular ingrowth. Firstly, we investigated the effect of gelatin within the scaffolds on the mechanical and chemical properties using compression testing and FTIR spectroscopy, respectively. Initial in vitro assessment of cell metabolic activity and vascular endothelial growth factor expression demonstrated that gelatin-containing PCL-M polyHIPEs are capable of supporting 3D breast cancer cell growth. We then utilised the chick chorioallantoic membrane (CAM) assay to assess the angiogenic potential of cell-seeded gelatin-containing PCL-M polyHIPEs, and vascular ingrowth within cell-seeded, surfactant and gelatin-containing scaffolds was investigated via histological staining. Overall, our study proposes a promising composite material to fabricate a substrate to support the 3D culture of cancer cells and vascular ingrowth.Article Citation - Scopus: 20Estrus Detection and Dairy Cow Identification With Cascade Deep Learning for Augmented Reality-Ready Livestock Farming(Multidisciplinary Digital Publishing Institute (MDPI), 2023) Arıkan, İ.; Ayav, T.; Seçkin, A.Ç.; Soygazi, F.Accurate prediction of the estrus period is crucial for optimizing insemination efficiency and reducing costs in animal husbandry, a vital sector for global food production. Precise estrus period determination is essential to avoid economic losses, such as milk production reductions, delayed calf births, and disqualification from government support. The proposed method integrates estrus period detection with cow identification using augmented reality (AR). It initiates deep learning-based mounting detection, followed by identifying the mounting region of interest (ROI) using YOLOv5. The ROI is then cropped with padding, and cow ID detection is executed using YOLOv5 on the cropped ROI. The system subsequently records the identified cow IDs. The proposed system accurately detects mounting behavior with 99% accuracy, identifies the ROI where mounting occurs with 98% accuracy, and detects the mounting couple with 94% accuracy. The high success of all operations with the proposed system demonstrates its potential contribution to AR and artificial intelligence applications in livestock farming. © 2023 by the authors.Article Citation - WoS: 1Citation - Scopus: 1Light-Dark and Activity Rhythm Therapy (l-Dart) To Improve Sleep in People With Schizophrenia Spectrum Disorders: a Single-Group Mixed Methods Study of Feasibility, Acceptability and Adherence(MDPI, 2023) Faulkner, Sophie; Didikoğlu, Altuğ; Byrne, Rory; Drake, Richard; Bee, PennyPeople with a diagnosis of schizophrenia often have poor sleep, even when their psychotic symptoms are relatively well managed. This includes insomnia, sleep apnoea, hypersomnia, and irregular or non-24 h sleep-wake timing. Improving sleep would better support recovery, yet few evidence-based sleep treatments are offered to this group. This paper presents a mixed methods feasibility and acceptability study of Light-Dark and Activity Rhythm Therapy (L-DART). L-DART is delivered by an occupational therapist over 12 weeks. It is highly personalisable to sleep phenotypes and circumstances. Ten participants with schizophrenia spectrum diagnoses and sleep problems received L-DART; their sleep problems and therapy goals were diverse. We measured recruitment, attrition, session attendance, and adverse effects, and qualitatively explored acceptability, engagement, component delivery, adherence, activity patterns, dynamic light exposure, self-reported sleep, wellbeing, and functioning. Recruitment was ahead of target, there was no attrition, and all participants received the minimum 'dose' of sessions. Acceptability assessed via qualitative reports and satisfaction ratings was good. Adherence to individual intervention components varied, despite high participant motivation. All made some potentially helpful behaviour changes. Positive sleep and functioning outcomes were reported qualitatively as well as in outcome measures. The findings above support testing the intervention in a larger randomised trial ISRCTN11998005.Review Citation - WoS: 13Citation - Scopus: 13Oxygen Delivery Biomaterials in Wound Healing Applications(WILEY-V C H VERLAG GMBH, 2023) Bayraktar, Sema; Üstün, Cansu; Kehr, Nermin SedaOxygen (O2) delivery biomaterials have attracted great interest in the treatment of chronic wounds due to their potential applications in local and continuous O2 generation and delivery, improving cell viability until vascularization occurs, promoting structural growth of new blood vessels, simulating collagen synthesis, killing bacteria and reducing hypoxia-induced tissue damage. Therefore, different types of O2 delivery biomaterials including thin polymer films, fibers, hydrogels, or nanocomposite hydrogels have been developed to provide controlled, sufficient and long-lasting O2 to prevent hypoxia and maintain cell viability until the engineered tissue is vascularized by the host system. These biomaterials are made by various approaches, such as encapsulating O2 releasing molecules into hydrogels, polymer microspheres and 3D printed hydrogel scaffolds and adsorbing O2 carrying reagents into polymer films of fibers. In this article, different O2 generating sources such as solid inorganic peroxides, liquid peroxides, and photosynthetic microalgae, and O2 carrying perfluorocarbons and hemoglobin are presented and the applications of O2 delivery biomaterials in promoting wound healing are discussed. Furthermore, challenges encountered and future perspectives are highlighted. Oxygen delivery (O2) biomaterials have attracted great interest in the treatment of chronic wounds due to their ability to continuously deliver oxygen and support cell viability. Therefore, various O2 generating sources such as solid inorganic peroxides, liquid peroxides and photosynthetic microalgae, and O2-carrying perfluorocarbons and hemoglobin are incorporated into different biomaterial networks for wound healing applications.imageArticle Citation - WoS: 10Citation - Scopus: 11Liquefaction of Oak Wood Using Various Solvents for Bio-Oil Production(AMER CHEMICAL SOC, 2023) Öcal, Bulutcem; Yüksel, AslıRapidly increasing global energy demand resulting from the growing population and worldwide development has increased the consumption of limited fossil fuel. The usage causes severe environmental deterioration by CO2 emission, which has sparked interest in finding green, renewable, and sustainable alternative sources of energy. Bio-oil, derived from several biomasses via liquefaction, is a promising candidate to replace fossil fuels. Turkey's land (27%) is covered with forested areas (consisting of mostly oak trees). Therefore, it has great potential for cheap lignocellulosic feedstock forest residues from industrial applications and harvesting. In the present study, the thermal liquefaction of oak wood particles (OWP) was performed using various solvents in addition to water, namely, ethanol, 1-butanol, and 1,4-dioxane. The experiments were carried out in a batch reactor for 1 and 2 h residence times at different temperatures (210, 240, and 270 degrees C). Bio-oil samples obtained at 270 degrees C and a 1 h residence time determined as optimum conditions were analyzed with TGA, CHNS elemental analysis, FTIR, and GC-MS. 1,4-Dioxane showed the best performance in yielding the maximum bio-oil with 51.8% at those conditions. The higher heating values of the bio-oils ranged from 22.1 to 35 MJ/kg. Phenolic groups were the predominant components of bio-oil produced from OWP, while the intensity of alcohols, ketones, and acids varied based on used solvents. Based on energy recovery calculations, the enhancement of pristine OWP's energy efficiency depended on bio-oil yield, and quality was confirmed for all solvent types (1,4-dioxane > 1-butanol > water > ethanol).Article Citation - WoS: 6Citation - Scopus: 10Azimuthal Correlations Within Exclusive Dijets With Large Momentum Transfer in Photon-Lead Collisions(Amer Physical Soc, 2023) Tumasyan, A.; Adam, W.; Bergauer, T.; Dragicevic, M.; Del Valle, A. Escalante; Fruhwirth, R.; Zhokin, A.The structure of nucleons is multidimensional and depends on the transverse momenta, spatial geometry, and polarization of the constituent partons. Such a structure can be studied using high-energy photons produced in ultraperipheral heavy-ion collisions. The first measurement of the azimuthal angular correlations of exclusively produced events with two jets in photon-lead interactions at large momentum transfer is presented, a process that is considered to be sensitive to the underlying nuclear gluon polarization. This study uses a data sample of ultraperipheral lead-lead collisions at ffiffiffiffiffiffiffi p = 5.02 TeV, corresponding to sNN an integrated luminosity of 0.38 nb-1, collected with the CMS experiment at the LHC. The measured second harmonic of the correlation between the sum and difference of the two jet transverse momentum vectors is found to be positive, and rising, as the dijet transverse momentum increases. A well-tuned model that has been successful at describing a wide range of proton scattering data from the HERA experiments fails to describe the observed correlations, suggesting the presence of gluon polarization effects.Article Citation - WoS: 7Citation - Scopus: 6Thickness Gradient in Polymer Coating by Reactive Layer-By Assembly on Solid Substrate(Amer Chemical Soc, 2023) Özenler, Sezer; Alkan, Ali Ata; Gunay, Ufuk Saim; Dağlar, Özgün; Durmaz, Hakan; Yıldız, Ümit HakanThe study describes a simple yet robust methodology for forming gradients in polymer coatings with nanometer-thickness precision. The thickness gradients of 0-20 nm in the coating are obtained by a reactive layer-by-layer assembly of polyester and polyethylenimine on gold substrates. Three parameters are important in forming thickness gradients: (i) the incubation time, (ii) the incubation concentration of the polymer solutions, and (iii) the tilt angle of the gold substrate during the dipping process. After examining these parameters, the characterization of the anisotropic surface obtained under the best conditions is presented in the manuscript. The thickness profile and nanomechanical characterization of the polymer gradients are characterized by atomic force microscopy. The roughness analysis has demonstrated that the coating exhibited decreasing roughness with increasing thickness. On the other hand, Young's moduli of the thin and thick coatings are 0.50 and 1.4 MPa, respectively, which assured an increase in mechanical stability with increasing coating thickness. Angle-dependent infrared spectroscopy reveals that the C-O-C ester groups of the polyesters exhibit a perpendicular orientation to the surface, while the C=C groups are parallel to the surface. The surface properties of the polymer gradients are explored by fluorescence microscopy, proving that the dye's fluorescence intensity increases as the coating thickness increases. The significant benefit of the suggested methodology is that it promises thickness control of gradients in the coating as a consequence of the fast reaction kinetics between layers and the reaction time.Article Citation - WoS: 75Citation - Scopus: 73Proton Transport Through Nanoscale Corrugations in Two-Dimensional Crystals(Nature Portfolio, 2023) Wahab, O. J.; Daviddi, E.; Xin, B.; Sun, P. Z.; Griffin, E.; Colburn, A. W.; Unwin, P. R.Defect-free graphene is impermeable to all atoms(1-5) and ions(6,7) under ambient conditions. Experiments that can resolve gas flows of a few atoms per hour through micrometre-sized membranes found that monocrystalline graphene is completely impermeable to helium, the smallest atom(2,5). Such membranes were also shown to be impermeable to all ions, including the smallest one, lithium(6,7). By contrast, graphene was reported to be highly permeable to protons, nuclei of hydrogen atoms(8,9). There is no consensus, however, either on the mechanism behind the unexpectedly high proton permeability(10-14) or even on whether it requires defects in graphene's crystal lattice(6,8,15-17). Here, using high-resolution scanning electrochemical cell microscopy, we show that, although proton permeation through mechanically exfoliated monolayers of graphene and hexagonal boron nitride cannot be attributed to any structural defects, nanoscale non-flatness of two-dimensional membranes greatly facilitates proton transport. The spatial distribution of proton currents visualized by scanning electrochemical cell microscopy reveals marked inhomogeneities that are strongly correlated with nanoscale wrinkles and other features where strain is accumulated. Our results highlight nanoscale morphology as an important parameter enabling proton transport through two-dimensional crystals, mostly considered and modelled as flat, and indicate that strain and curvature can be used as additional degrees of freedom to control the proton permeability of two-dimensional materials. A study using high-resolution scanning electrochemical cell microscopy attributes proton permeation through defect-free graphene and hexagonal boron nitride to transport across areas of the structure that are under strain.Article Citation - WoS: 26Citation - Scopus: 27Dopamine-Conjugated Bovine Serum Albumin Nanoparticles Containing Ph-Responsive Catechol-V(iii) Coordination for in Vitro and in Vivo Drug Delivery(Amer Chemical Soc, 2023) Argıtekin, Eda; Ersöz-Gülseven, Esra; Çakan-Akdoğan, Gülçin; Akdoğan, YaşarV(III) instead of commonly used Fe(III) provided a richtris-catechol-metalcoordination at pH 7.4, which is important for slow drug release atphysiological pH. Bovine serum albumin (BSA) functionalized with catechol-containingdopamine (D) and cross-linked using tris-catechol-V(III) coordinationyielded pH-responsive compact D-BSA NPs (253 nm). However, conversionto bis- and/or mono-catechol-V(III) complexes in an acidic mediumresulted in degradation of NPs and rapid release of doxorubicin (DOX).It was shown that D-BSA NPs entered cancerous MCF-7 cells (66%) moreefficiently than non-cancerous HEK293T (33%) in 3 h. Also, DOX-loadedNPs reduced cell viability of MCF-7 by 75% and induced apoptosis ina majority of cells after 24 h. Biodegradability and lack of hemolyticactivity were shown in vitro, whereas a lack of toxicity was shownin histological sections of zebrafish. Furthermore, 30% of circulatingtumor cells in vasculature in 24 h were killed by DOX-loaded NPs shownwith the zebrafish CTC xenograft model.