Yazar "AGÜ, Yaşam ve Doğa Bilimleri Fakültesi, Biyomühendislik Bölümü" için WoS İndeksli Yayınlar Koleksiyonu listeleme
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Discovery of adapalene and dihydrotachysterol as antiviral agents for the Omicron variant of SARS‑CoV‑2 through computational drug repurposing
Fidan, Özkan; Mujwar, Somdutt; Kciuk, Mateusz (SPRINGER, VAN GODEWIJCKSTRAAT 30, 3311 GZ DORDRECHT, NETHERLANDS, 2022)Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has been signifcantly paralyzing the societies, economies and health care systems around the globe. The mutations on the genome of SARS-CoV-2 led to the emergence ... -
Editorial: Microbial production of medicinally important agents
Zeng, Jia; Zhan, Jixun; Qiao, Xue; Fidan, Ozkan (FRONTIERS MEDIA SA, 2023)Harnessing microbial systems as bio-factories for the production of medically significant agents presents a thriving avenue in pharmaceutical research. From manufacturing natural products, including potent secondary ... -
Engineered Production of Bioactive Natural Products from Medicinal Plants
Fidan, Ozkan; Ren, Jie; Zhan, Jixun (WOLTERS KLUWER MEDKNOW, 2022)Plant natural products have been particularly important due to their use in food, cosmetic, and pharmaceutical industries. In particular, Traditional Chinese Medicine provides a precious potential for the discovery of ... -
Environmental responsiveness of tubulin glutamylation in sensory cilia is regulated by the p38 MAPK pathway
Kimura, Yoshishige; Tsutsumi, Koji; Konno, Alu; Ikegami, Koji; Hameed, Saira; Kaneko, Tomomi; Kaplan, Oktay Ismail; Teramoto, Takayuki; Fujiwara, Manabi; Ishihara, Takeshi; Blacque, Oliver E.; Setou, Mitsutoshi (NATURE PUBLISHING GROUP, MACMILLAN BUILDING, 4 CRINAN ST, LONDON N1 9XW, ENGLAND, 2018)Glutamylation is a post-translational modification found on tubulin that can alter the interaction between microtubules (MTs) and associated proteins. The molecular mechanisms regulating tubulin glutamylation in response ... -
Ethacrynic acid and cinnamic acid combination exhibits selective anticancer effects on K562 chronic myeloid leukemia cells
Yenigul, Munevver; Akcok, Ismail; Gencer Akcok, Emel Basak (SPRINGER, 2022)Background Despite the recent advances in chemotherapy, the outcomes and the success of these treatments still remain insufficient. Novel combination treatments and treatment strategies need to be developed in order to ... -
EVALUATION OF THE SENSORY CORRELATION BETWEEN TOUCH SENSITIVITY AND THE CAPACITY TO DISCRIMINATE VISCOSITY
Aktar, Tugba; Chen, Jianshe; Ettelaie, Rammile; Holmes, Melvin (WILEY, 2015)The capacity to discriminate the viscous nature of food materials is critically important in the sensory evaluation and subsequent perception of food texture and acceptability. It is generally assumed that this capability ... -
Exploring the binding capacity of lactic acid bacteria derived bacteriocins against RBD of SARS-CoV-2 Omicron variant by molecular simulations
The changes in the SARS-CoV-2 genome have resulted in the emergence of new variants. Some of the variants have been classified as variants of concern (VOC). These strains have higher transmission rate and improved fitness. ... -
Exploring therapeutic avenues: mesenchymal stem/stromal cells and exosomes in confronting enigmatic biofilm-producing fungi
Bicer, Mesude (SPRINGER, 2024)Fungal infections concomitant with bioflms can demonstrate an elevated capacity to withstand substantially higher concentrations of antifungal agents, contrasted with infectious diseases caused by planktonic cells. This ... -
Genomic, probiotic, and metabolic potentials of Liquorilactobacillus nagelii AGA58, a novel bacteriocinogenic motile strain isolated from lactic acid-fermented shalgam
Yetiman, Ahmet Evren; Ortakci, Fatih (ELSEVIER, 2023)This study aimed to perform genomic, probiotic, and metabolic characterization of a novel Liquorilactobacillus nagelii AGA58 isolated from a lactic acid-fermented shalgam beverage to understand its metabolic potentials and ... -
Histopathology image classification: highlighting the gap between manual analysis and AI automation
Doğan, Refika Sultan; Yılmaz, Bülent (FRONTIERS MEDIA SA, 2023)The field of histopathological image analysis has evolved significantly with the advent of digital pathology, leading to the development of automated models capable of classifying tissues and structures within diverse ... -
Immunomagnetic separation of B type acute lymphoblastic leukemia cells from bone marrow with flow cytometry validation and microfluidic chip measurements
Icoz, Kutay; Eken, Ahmet; Cinar, Suzan; Murat, Aysegul; Ozcan, Servet; Unal, Ekrem; Deniz, Gunnur (TAYLOR & FRANCIS INC, 530 WALNUT STREET, STE 850, PHILADELPHIA, PA 19106 USA, 2020)In order to detect the blast cells from bone marrow of patients, one strategy is to first isolate the cells using immunomagnetic beads. The aim of this study was to report the experimental results of the immunomagnetic ... -
In Silico Analysis of Bacteriocins from Lactic Acid Bacteria Against SARS-CoV-2
Erol, Ismail; Kotil, Seyfullah Enes; Fidan, Ozkan; Yetiman, Ahmet E.; Durdagi, Serdar; Ortakci, Fatih (SPRINGERONE NEW YORK PLAZA, SUITE 4600 , NEW YORK, NY 10004, UNITED STATES, 2021)The COVID-19 pandemic caused by a novel coronavirus (SARS-CoV-2) is a serious health concern in the twenty-first century for scientists, health workers, and all humans. The absence of specific biotherapeutics requires new ... -
In silico evaluation of food-derived carotenoids against SARS-CoV-2 drug targets: Crocin is a promising dietary supplement candidate for COVID-19
Mujwar, Somdutt; Sun, Lei; Fidan, Ozkan (WILEY111 RIVER ST, HOBOKEN 07030-5774, NJ, 2022)The current COVID-19 pandemic is severely threatening public healthcare systems around the globe. Some supporting therapies such as remdesivir, favipiravir, and ivermectin are still under the process of a clinical trial, ... -
In-Silico Methods to Identify Common MicroRNAs and Pathways of Neuromuscular Diseases
Yazici, Miray Unlu; Menges, Evrim Aksu; Ulum, Yeliz Z. Akkaya; Hayta, Burcu Balci; Bakir-Gungor, Burcu (IEEE, 345 E 47TH ST, NEW YORK, NY 10017 USA, 2019)Neuromuscular disorders (NMD) are a heterogeneous group of diseases characterized by the loss of function of the peripheral nerves and muscles. However, there are no effective and widespread therapeutic approaches to prevent ... -
Inhibition of pathologic immunoglobulin E in food allergy by EBF-2 and active compound berberine associated with immunometabolism regulation
Yang, Nan; Maskey, Anish R.; Srivastava, Kamal; Kim, Monica; Wang, Zixi; Musa, Ibrahim; Shi, Yanmei; Fidan, Ozkan; Wang, Julie; Dunkin, David; Chung, Danna; Zhan, Jixun; Miao, Mingsan; Sampson, Hugh A; Li, Xiu-Min (FRONTIERS MEDIA SA, 2023)IntroductionFood allergy is a significant public health problem with limited treatment options. As Food Allergy Herbal Formula 2 (FAHF-2) showed potential as a food allergy treatment, we further developed a purified version ... -
Inhibition of PI3K-AKT-mTOR pathway and modulation of histone deacetylase enzymes reduce the growth of acute myeloid leukemia cells
Şansaçar, Merve; Sağır, Helin; Gencer Akçok, Emel Başak (HUMANA PRESS INC, 2023)One of the most widespread forms of blood cancer is known as acute myeloid leukemia (AML) which has an incidence of 80% with poor prognosis. Although there are different treatment methods for AML in clinic, the heterogeneity ... -
Investigation of the Interaction of Adipose-Derived Mesenchymal Stem Cells with ε-Polycaprolactone and Egg White Scaffolds
Oztel, Olga N.; Yilmaz, Hilal; Isoglu, Ismail Alper; Allahverdiyev, Adil (GAZİ ÜNİVERSİTESİ, 2023)The development of three-dimensional (3D) cell culture models is becoming increasingly important due to their numerous advantages over conventional monolayer culture. This study aimed to examine the interaction of adipose ... -
MicroRNA prediction based on 3D graphical representation of RNA secondary structures
Müşerref Duygu, SAÇAR DEMİRCİ (TUBITAK SCIENTIFIC & TECHNICAL RESEARCH COUNCIL TURKEY, ATATURK BULVARI NO 221, KAVAKLIDERE, ANKARA, 00000, TURKEY, 2019)MicroRNAs (miRNAs) are posttranscriptional regulators of gene expression. While a miRNA can target hundreds of messenger RNA (mRNAs), an mRNA can be targeted by different miRNAs, not to mention that a single miRNA might ... -
NeRNA: A negative data generation framework for machine learning applications of noncoding RNAs
Orhan, Mehmet Emin; Demirci, Yilmaz Mehmet; Sacar Demirci, Muserref Duygu (PERGAMON-ELSEVIER SCIENCE, 2023)Many supervised machine learning based noncoding RNA (ncRNA) analysis methods have been developed to classify and identify novel sequences. During such analysis, the positive learning datasets usually consist of known ... -
On the detailed mechanical response investigation of PHBV/PCL and PHBV/PLGA electrospun mats
Bal, Burak; Tugluca, Ibrahim Burkay; Koc, Nuray; Isoglu, Ismail Alper (IOP PUBLISHING LTD, TEMPLE CIRCUS, TEMPLE WAY, BRISTOL BS1 6BE, ENGLAND, 2019)In this study, electrospun mats of pristine poly(epsilon-caprolactone) (PCL), Poly(D, L-lactide-co-glycolide) (PLGA), poly(3-hydroxybutyrate-co-3-hydroxyvalerate) (PHBV), as well as PHBV/PCL blends and PHBV/PLGA blends in ...