PubMed İndeksli Yayınlar Koleksiyonu / PubMed Indexed Publications Collection

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Now showing 1 - 10 of 223
  • Article
    Self-Assembled Peptide Hydrogels with Cell Attachment Motifs for 3D Lung Cancer Model: Evaluation of Cell-Matrix Interactions and Drug Response
    (John Wiley and Sons Inc, 2026) Sırma Tarım, B.; Tamburaci, S.; Top, A.
    3D cancer models can mimic the tumor microenvironment, serving as a physiologically relevant platform to investigate the behavior of tumors and test anticancer therapeutics. Although bioactive peptide hydrogels have been widely evaluated for tissue engineering applications, their potential in 3D cancer models has been confirmed in only a few studies. In this study, self-assembling peptide hydrogels containing LDV (IBP1) and LDV and IKVAV cell attachment motifs (IBP2), and the control hydrogel without adhesion units (KLEI) were used for lung cancer modeling. The peptides self-assembled into hydrogels in a cell culture medium with storage moduli of ∼700–1500 Pa. The IBP1 and IBP2 hydrogels enhanced A549 cell proliferation and induced the formation of spheroids with average diameters between ∼70 and ∼150 µm. The cells in KLEI hydrogel with the highest stiffness exhibited mesenchymal-type migration, independent of the cell population, whereas transformation to mesenchymal migration necessitated a specific cell population in the IBP2 hydrogel. The cells in the IBP1 and IBP2 hydrogels with enhanced cell-cell interactions demonstrated higher resistance to docetaxel (DTX). Thus, our results indicate that these bioactive hydrogels can serve as a promising platform for in vitro assessment of cancer mechanisms and drug screening. © 2026 Wiley-VCH GmbH.
  • Article
    Anticancer Properties of Newly Synthesized Pyrrole Derivatives as Potential Tyrosine Kinase Inhibitors
    (Wiley, 2026) Kaya, Meltem; Kara, Yunus; Sanli-Mohamed, Gulsah
    The anticancer activity of a series of newly synthesized pyrrole derivatives was systematically evaluated in HeLa cervical cancer cells, focusing on their potential as tyrosine kinase inhibitors and modulators of the mTOR signaling pathway. This study builds on our previous synthetic work by investigating the biological effects of seven structurally characterized compounds (d1-d7). Among them, compounds d1 and d3 exhibited the most potent cytotoxicity, with IC50 values of 140.6 mu M and 366.4 mu M, respectively, after 48 h of treatment. Both compounds significantly impaired cell cycle progression-d1 induced S-phase arrest, while d3 caused G1-phase arrest-and markedly suppressed cell migration in wound healing assays. Mechanistically, these effects were accompanied by reduced phosphorylation of p70S6K (Thr389, Ser421/424) and increased p-4EBP1, indicating inhibition of mTORC1 signaling. These findings suggest that d1 and d3 are promising lead compounds with dual antiproliferative and anti-migratory activity in cervical cancer, mediated through modulation of the PI3K/Akt/mTOR axis.
  • Article
    Liposomal Encapsulation of a Synthetic Bromophenol for Antitumor Efficacy and Apoptotic Activity in Cancer Cells
    (Springer, 2026) Oztanrikulu, Bercem Dilan; Ozdemir, Ekrem; Avci, Bahri; Goksu, Suleyman; Bayrakceken, Handan Uguz; Askin, Hakan
    A novel synthetic bromophenol (BP), inspired by marine-derived natural bromophenols, was evaluated for its antitumor activity and for the enhancement of its in vitro performance through liposomal encapsulation (LipoBP). Etoposide was used as a reference in characterization, release, and loading studies. PEGylated liposomes were employed to improve BP's solubility, bioavailability, and therapeutic potential. The cytotoxicity, apoptosis, and gene expression effects of free BP and LipoBP were assessed in A549 (lung) and MCF-7 (breast) cancer cell lines. WST-8 assays showed that encapsulation significantly increased BP's cytotoxic activity, particularly in A549 cells, while flow cytometry and Annexin V-FITC/PI analyses indicated more pronounced apoptotic induction by LipoBP compared with free BP. qRT-PCR analyses revealed upregulation of proapoptotic genes (BAX, CASP6, CASP3 and CASP9) and downregulation of antiapoptotic/survival genes (BCL-XL, IQSEC2) in both cell lines, indicating activation of intrinsic apoptotic pathways. Plain liposomes exhibited minimal cytotoxicity, confirming their biocompatibility. Liposomal bromophenol, which we have introduced to the literature for the first time, is expected to be a promising nanocarrier system that could be effective in cancer treatment by improving the therapeutic index of new drug candidates such as marine bromophenols.
  • Correction
    Development of Tissue-Engineered Vascular Grafts from Decellularized Parsley Stems (Vol 20, Pg 338, 2024)
    (Royal Society Chemistry, 2024) Cevik, Merve; Dikici, Serkan
  • Article
    A Physics-Informed Neural Network (PINN) Approach to Over-Equilibrium Dynamics in Conservatively Perturbed Linear Equilibrium Systems
    (MDPI, 2025) Dutta, Abhishek; Mukherjee, Bitan; Hosen, Sk Aftab; Turan, Meltem; Constales, Denis; Yablonsky, Gregory
    Conservatively perturbed equilibrium (CPE) experiments yield transient concentration extrema that surpass steady-state equilibrium values. A physics-informed neural network (PINN) framework is introduced to simulate these over-equilibrium dynamics in linear chemical reaction networks without reliance on extensive time-series data. The PINN incorporates the reaction kinetics, stoichiometric invariants, and equilibrium constraints directly into its loss function, ensuring that the learned solution strictly satisfies physical conservation laws. Applied to three- and four-species reversible mechanisms (both acyclic and cyclic), the PINN surrogate matches conventional ODE integration results, reproducing the characteristic early concentration extrema (maxima or minima) in unperturbed species and the subsequent relaxation to equilibrium. It captures the timing and magnitude of these extrema with high accuracy while inherently preserving total mass. Through the physics-informed approach, the model achieves accurate results with minimal data and a compact network architecture, highlighting its parameter efficiency.
  • Article
    K41-A Enhances the Antiproliferative Efficacy of Cisplatin in Neuroblastoma by Modulating Apoptosis and Autophagy
    (Oxford University Press, 2026) Sanlav, Gamze; Kum Ozsengezer, Selen; Altun, Zekiye; Bedir, Erdal; Aktas, Safiye; Olgun, Nur
    Objectives Neuroblastoma (NB), the most common extracranial tumor in childhood, has a poor prognosis, especially in cases with MYC gene amplification. Cisplatin (CDDP) is widely used in treatment, but its effectiveness is limited due to chemotherapy resistance. Autophagy plays a dual role in cancer progression, either promoting survival or contributing to cell death.Methods This study explores the anticancer effects of K41-A, a polycyclic polyether molecule, alone and in combination with CDDP in SH-SY5Y and KELLY NB cell lines, the HE-IOC1 noncancerous cochlear cell line, and the NB xenograft model.Key findings For the first time, we demonstrate that K41-A, either alone or combined with CDDP, significantly inhibits cell proliferation selectively in NB cells, sparing noncancerous cells. This study confirmed that K41-A alone and in combination with CDDP induced changes in both apoptotic and autophagic cell death components in NB, resulting in antiproliferative activity in vitro and in vivo. In addition, the combination with CDDP enhanced the therapeutic efficacy of K41-A.Conclusions These results highlight the potential of K41-A as a candidate drug for the treatment of NB.
  • Article
    Development of Self-Assembled Peptide Hydrogels Containing Matrix-Metalloproteinase Degradable Motifs for 3D Lung Cancer Models
    (Royal Society of Chemistry, 2026) Tarim, Burcu Sirma; Tamburaci, Sedef; Top, Ayben
    Hydrogel-forming peptides, including matrix metalloproteinase (MMP)-degradable motifs, have been employed to investigate cell-extracellular matrix interactions in vitro. However, their potential in 3D cancer models has been explored only in a few studies. In this study, we used modified MMP-2 degradable motifs (VSLRA or ASLRA) in the design of EDP1 (RVSLRADARVSLRADA) and EDP2 (RASLRADARASLRADA) peptide hydrogelators. The peptides self-assembled into nanofibrillar hydrogels with storage moduli between similar to 300 and similar to 400 Pa. MMP-2 degradation properties of the peptides were confirmed, and a slightly higher MMP-2 responsiveness of the EDP1 hydrogel was observed. The hydrogels were used in the encapsulation of A549 lung adenocarcinoma cancer cells and MRC-5 human lung fibroblast cells. The designed hydrogels supported the proliferation of these cells with high viability and induced cluster formation of encapsulated A549 cells similar to that observed with the RADA hydrogel. However, the hydrogel network structure affected the morphology of the migrated cells in the absence of curcumin. The addition of curcumin decreased the migration and invasion of A549 cells, resulting in a round cell morphology independent of the hydrogel matrices. Anticancer drug tests indicated that cell viability after drug treatment was higher in the 3D hydrogels than in 2D cultures. It was also confirmed that the combinational therapy of doxorubicin and curcumin decreased the cell proliferation and colonization to a greater extent compared to doxorubicin monotherapy. Thus, the hydrogels developed in this study can be used for 3D cancer models or other tissue engineering applications as an alternative to the RADA hydrogel by exploiting the MMP-2 degradation properties.
  • Article
    Enhanced Osteoconductive Properties of Quince Seed Hydrocolloid-Based Composite Scaffolds Enriched With Bioactive Glass for Bone Tissue Engineering
    (Wiley-VCH Verlag GmbH, 2025) Yilmaz-Dagdeviren, Hilal Deniz; Zheng, Kai; Boccaccini, Aldo Roberto; Arslan Yildiz, Ahu
    Bioactive composite scaffolds enhance osteoconduction and mineralization, offering potential for bone regeneration. In this study, polysaccharide-based Quince Seed Hydrocolloid (QSH) was combined with Gelatin (Gel), mesoporous bioactive glass nanoparticles (MBGNs), and 45S5 bioactive glass (BG) to fabricate osteoconductive scaffolds. QSH/Gel/BG and QSH/Gel/MBGN composites were characterized for chemical composition, mechanical behavior, and in vitro bioactivity. FTIR and SEM-elemental mapping confirmed homogeneous bioactive glass incorporation. BET analysis revealed a >3-fold increase in surface area for MBGN-containing scaffolds compared to BG and pristine QSH/Gel samples, attributed to the nanoscale mesoporous structure of MBGNs. Swelling tests showed a hydrophilic nature in all scaffolds, with MBGN composites exhibiting the highest swelling ratio (2094 +/- 571%), nearly twice that of BG composites (1105 +/- 56%). Compression tests indicated similar elastic moduli for MBGN and BG containing scaffolds (2330 and 2140 Pa). Human osteosarcoma cell cultures (28 days) demonstrated high viability (>70%) and osteoconductive response in all composites. Alizarin Red staining and SEM mapping revealed greater mineral accumulation in MBGN-containing scaffolds (Ca/P: 2.53). Overall, both composites supported a 3D osteoconductive microenvironment, while MBGN scaffolds exhibited superior long-term cell viability and mineralization potential, emphasizing their suitability for bone tissue engineering applications.
  • Article
    Geogenic Determinants of Indoor Radon Exposure in Izmir (West Türkiye)
    (Pergamon-Elsevier Science Ltd, 2026) Alkan, Turkan; Simsek, Celalettin; Sac, Murat; Uzelli, Taygun; Taskin, Nurcihan
    Radon, a naturally occurring product of uranium decay, is the second leading cause of lung cancer. I(center dot)zmir Province in western T & uuml;rkiye, situated within the Aegean extensional regime, comprises complex fault-bounded basins that favor indoor radon accumulation. This study evaluates the spatial variability and geogenic controls of indoor radon to delineate radon-prone zones with public-health relevance. Indoor radon was measured in 79 dwellings distributed across major lithologies and structural settings; detectors were deployed in basements to capture soil-gas infiltration. Concentrations ranged from 12 to 366.5 Bq/m3 (mean 118 Bq/m3), exceeding the national average of 81 Bq/m3; 32 % of sites surpassed the EPA action level of 148 Bq/m3. Highest values cluster in Bornova, Buca, and Kemalpas, a, coincident with fault-controlled sedimentary basins and permeable units. Spatial mapping highlights the dominant influence of lithology and fault proximity on radon distribution and underscores the limitations of uniform, national-scale mitigation policies. We advocate targeted, geology-aware health policies and urban-planning measures for monitoring and mitigation in geogenically vulnerable districts. These findings contribute to medical geology by providing region-specific evidence of radon risk in one of T & uuml;rkiye's most seismically active metropolitan areas. These outputs provide decision-ready evidence for monitoring, mitigation, and building-code updates in seismically active metropolitan settings.
  • Article
    Analytical Methodology for Monitoring and Distribution Pattern Analysis of Polycyclic Aromatic Hydrocarbons in River Basins Based on Chemometrics
    (Wiley, 2025) Yildirim, Ebru calkan; Pelit, Fusun; Ozdemir, Durmus; Kazan, Aysegul; Tasdelen, Ozge; Baycan, Neval
    With the increase in urbanization and industrialization, the environmental quality of river basins, which serve as a crucial source of irrigation for agricultural activities, has been deteriorating progressively. Thus, monitoring persistent toxic substances in urban water resources is crucial for maintaining ecological stability and protecting human health. In recent years, particular attention has been directed toward the prevention of polyaromatic hydrocarbons (PAHs), highlighting the importance of analyzing these compounds in water samples through more environmentally sustainable techniques. In this study, we report a green, rapid, cost-effective and simple dispersive liquid-liquid extraction (DLLME) method to monitor PAHs in river waters taken from 21 stations located within the geographical boundaries of the Gediz River Basin in Izmir Province, T & uuml;rkiye. Methodological parameters were optimized by chemometric techniques including Plackett-Burman (PBD) and Box-Behnken design. The method's accuracy was tested upon spiked river samples, and the recoveries ranged from 80% to 102%. The calibration curves were linear, with correlation coefficients greater than 0.98. The limit of detection values were between 0.01 and 0.05 ng mL-1. The reproducibility (RSD%) varied from 4.0% to 19%. Multivariate classification methods such as principal component analysis (PCA) and hierarchical cluster analysis (HCA), along with the supervised classification method partial least squares discriminant analysis (PLS-DA) were applied to elucidate the general distribution patterns of individual PAHs in the basin water samples. The chemometric evaluation conducted across four seasons revealed that PAH contamination was higher in the fall and winter months, resulting in a clear separation from spring and summer samples by using the first two principal components.