Bioengineering / Biyomühendislik

Permanent URI for this collectionhttps://hdl.handle.net/11147/4529

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  • Book Part
    Astragalus sp.
    (CRC Press, 2023) Yakuboğulları, Nilgün; Bedir, Erdal
    Astragalus is one of the largest genera in Turkey and is widely distributed worldwide. The phytochemical studies on Turkish Astragalus species have presented 112 new compounds besides 63 known compounds. The overriding basis for biological activity studies is the traditional use of Astragalus roots in the Southeastern Region of Turkey to cure leukemia. As the isolated compounds did not show cytotoxic properties, a hypothesis that the biological activity of Astragalus saponins might result from the activation of the immune system came up. While Astragalus polysaccharides are used for their strong immunomodulatory activities in Chinese medicine, there are a few articles revealing the immunostimulatory properties of Astragalus saponins. Here, we summarized the compounds isolated from Turkish Astragalus species and concentrated on the immunomodulatory activities of these compounds to put forward their potential as saponin-based vaccine adjuvants. © 2024 selection and editorial matter, Ufuk Koca-Caliskan; individual chapters, the contributors.
  • Book Part
    Citation - Scopus: 2
    Bioprinting of Hydrogels for Tissue Engineering and Drug Screening Applications
    (Elsevier, 2022) Özmen, Ece; Yıldırım, Özüm; Arslan Yıldız, Ahu
    In tissue engineering, the 3-dimensional (3D) bioprinting method that enables the production of 3D structures by combining bioinks and cells has become one of the most promising technique. Over the last few years, 3D cell culture models gained importance in the development of disease model and drug development studies. The successful production of the 3D structures by 3D bioprinting mostly depends on the properties of the bioink to be used. Hydrogels, which are natural or synthetic polymers, are generally preferred as bioink materials with their high swelling ability, biocompatibility, biodegradability, and easy gelation ability. The convenience of hydrogels for varied bioprinting applications make them proper bioink materials for bioprinting of artificial tissues, tumor models, and tissue grafts. Bioprinting of functional tissues is successfully performed for years, and hydrogels are utilized as bioink in bone, vascular, neural, cartilage, cardiac, skin tissue engineering, and drug screening. In this chapter, bioprinting methodology, bioinks, hydrogel bioinks, and their applications are discussed in detail. © 2023 Elsevier Inc. All rights reserved.
  • Book Part
    Citation - Scopus: 3
    Tissue Engineering Applications of Marine-Based Materials
    (Springer, 2022) Polat, Hürriyet; Zeybek, Nuket; Polat, Mehmet
    Tissue engineering is a promising approach in replacing or improving tissues lost or has become nonviable due to disease or trauma by the use of scaffold materials by combining engineering and biochemical/physicochemical methods. Its purpose is to create suitable matrices that support cell differentiation and proliferation toward the formation of new and functional tissue. Marine-based natural compounds are potential scaffold feedstock material in tissue engineering owing to their biocompatibility and biodegradability while providing excellent biochemical/physicochemical properties. Numerous application areas and various fabrication routes techniques described in the literature attest to the importance of these materials in tissue regeneration. This review has been carried to merge the information from a large number of studies on the marine-based scaffold materials in tissue engineering into a coherent summary. © The Editor(s) (if applicable) and The Author(s), under exclusive license to Springer Nature Singapore Pte Ltd. 2022.
  • Book Part
    Noncoding Way of the Metastasis
    (Elsevier, 2022) Göker Bağca, Bakiye; Kuşoğlu, Alican; Çeşmeli, Selin; Biray Avcı, Çığır
    According to the World Health Organization statistics, the second leading cause of death globally is cancer. Together with this, metastasis is viewed as the leading cause of cancer death in patients with the disease due to the lack of treatment modalities for malignant tumors. One of the key mechanisms related to cancer metastasis is the epithelial-mesenchymal transition which enables epithelial cancer cells to gain mesenchymal cancer cell properties with elevated migration and invasion capacity that make it easy to spread distant tissues and survive from harsh conditions. Studies indicate that metastatic cancer cells have a gene expression signature that ensures those cells have increased migratory capacity as well as increased survival rate in circulation. Recently, the relationship of metastasis with two types of noncoding RNAs (ncRNAs), microRNAs (miRNAs), and long noncoding RNAs (lncRNAs) has been getting attention. In this chapter, the role of miRNAs and lncRNAs and treatment strategies regarding the role of ncRNAs in metastasis biology will be evaluated.
  • Conference Object
    Citation - Scopus: 2
    Label-Free Detection of Rare Cancer Cells Using Deep Learning and Magnetic Levitation Principle
    (SPIE, 2021) Delikoyun, Kerem; Demir, Ali Aslan; Tekin, Hüseyin Cumhur
    Magnetic levitation is an effective tool for separating target cells within a heterogeneous solution by utilizing density differences among cell lines. However, magnetic levitation cannot be used to identify target cells which have similar density profile as the other cells in the solution. Therefore, accuracy of cell identification can dramatically reduce. In this study, we introduce, for the first time, the use of deep learning-based object detection approach for label-free identification of rare cancer cells within levitated cells. As a result, our novel and hybrid detection strategy could be used to identify circulating tumor cells for diagnosis and prognosis of cancer. © 2021 SPIE.
  • Conference Object
    Deep Convolutional Neural Networks for Viability Analysis Directly From Cell Holograms Captured Using Lensless Holographic Microscopy
    (The Chemical and Biological Microsystems Society (CBMS), 2019) Delikoyun, Kerem; Çine, Ersin; Anıl İnevi, Müge; Özçivici, Engin; Özuysal, Mustafa; Tekin, Hüseyin Cumhur
    Cell viability analysis is one of the most widely used protocols in the fields of biomedical sciences. Traditional methods are prone to human error and require high-cost and bulky instrumentations. Lensless digital inline holographic microscopy (LDIHM) offers low-cost and high resolution imaging. However, recorded holograms should be digitally reconstructed to obtain real images, which requires intense computational work. We introduce a deep transfer learning-based cell viability classification method that directly processes the hologram without reconstruction. This new model is only trained once and viability of each cell can be predicted from its hologram. © 2019 CBMS-0001.
  • Conference Object
    Citation - Scopus: 2
    Magnetic Levitation-Based Protein Detection Using Lensless Digital Inline Holographic Microscopy
    (The Chemical and Biological Microsystems Society (CBMS), 2019) Yaman, Sena; Delikoyun, Kerem; Tekin, Hüseyin Cumhur
    We present a portable protein detection platform based on magnetic levitation principle integrated with a lensless imaging system. In the platform, polymer microspheres are used to capture selectively target proteins and magnetic nanoparticle labels. The imaging system monitors the levitation height change of polymer microspheres with respect to the presence of target protein on their surfaces. This system enables the detection of target proteins down to ng/mL levels in a short time. © 2019 CBMS-0001.
  • Book Part
    Citation - WoS: 13
    Citation - Scopus: 15
    Single Cell Densitometry and Weightlessness Culture of Mesenchymal Stem Cells Using Magnetic Levitation
    (Humana Press, 2020) Anıl İnevi, Müge; Yılmaz, Esra; Sarıgil, Öykü; Tekin, Hüseyin Cumhur; Özçivici, Engin
    Magnetic levitation methodology enables density-based separation of microparticles/cells and sustains cell culture in different media. Levitation process can be accomplished via negative magnetophoresis (diamagnetophoresis), where the applied magnetic force compensates gravitational acceleration and the density of the diamagnetic object (e.g., cell) determines its levitation height. Here we describe a portable, sensitive, and cost-effective technology that uses the principles of magnetic levitation to measure single cell density and cell culture under desired conditions. © 2019, Springer Science+Business Media New York.
  • Conference Object
    Citation - WoS: 1
    Citation - Scopus: 5
    Otomatik Dijital İmge Analizi Kullanılarak Manyetik Levitasyon Platformunda Mikroparçaçıkların Özkütlelerinin Belirlenmesi
    (IEEE, 2018) Tekin, H. Cumhur
    In this study, a program, which will allow an automatic determination of density data by performing digital image analysis for a magnetic levitation platform used to determine the densities of microparticles, is presented. With this program, by processing the images of the magnetic levitation platform, the positions of the microparticles on the platform can be determined and the corresponding density values can be found. Thus, the densities of microparticles can be detected automatically at a resolution of 0.27 mg/mL.