Enstitüler

Permanent URI for this communityhttps://hdl.handle.net/20.500.12573/391

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Development of breast cancer targeted, multifunctional cross-linked micelle nanocarriers
(Abdullah Gül Üniversitesi, Fen Bilimleri Enstitüsü, 2023) Bayram, Nazende Nur; AGÜ, Fen Bilimleri Enstitüsü, Biyomühendislik Ana Bilim Dalı
In this thesis, we developed two different micelle-based nanocarriers, which are pH-responsive and core cross-linked micelle (CCMs), and specifically target HER2 receptor on breast cancer cells. Intracellularly degradable and stabilized micelles were prepared by core cross-linking and RAFT polymerization in the presence of an acid-sensitive cross-linker. Poly(OEGMA) and poly(SBMA) were used as shell parts of these micelles in order to compare the effect of hydrophilic coatings on nanocarrier characteristics. In the first design, we applied drug conjugation (Doxorubicin) with a cleavable linker while in the second design, we used the encapsulation method for drug loading. Targeted micelles were obtained by coupling of HER2-specific peptides (VSSTQDFP and LTVSPWY) and antibody (Herceptin) to POEGMA and poly (SBMA) based CCMs, respectively. These nanocarriers are designed to be stable in blood circulation but cleavable intracellulary to achieve controlled drug release. Nanocarriers were characterized structurally by FTIR and 1H-NMR spectroscopies for all synthesis and conjugation steps. Moreover, nanocarriers and drug-loaded formulations were investigated by Zetasizer, Nanosight, and TEM/SEM analysis. The results showed that designed nanocarriers have a very high potential for HER2-specific targeted drug release for the treatment of breast cancer. This thesis holds significant importance due to its successful demonstration of two distinct systems exhibiting high stability, pH sensitivity, and high selectivity for HER2-targeted therapy of breast cancer.
Distributed Formation Control of Drones With Onboard Perception
(IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC, 2022) Kabore, Kader Monhamady; Guler, Samet; 0000-0001-5388-9649; 0000-0002-9870-166X; AGÜ, Fen Bilimleri Enstitüsü, Elektrik ve Bilgisayar Mühendisliği Ana Bilim Dalı; Kabore, Kader Monhamady; Guler, Samet
While aerial vehicles offer enormous benefits in several application domains, multidrone localization and control in uncertain environments with limited onboard sensing capabilities remains an active research field. A formation control solution which does not rely on external infrastructure aids such as GPS and motion capture systems must be established based on onboard perception feedback. We address the integration of onboard perception and decision layers in a distributed formation control architecture for three-drone systems. The proposed algorithm fuses two sensor characteristics, distance, and vision, to estimate the relative positions between the drones. Particularly, we utilize the omnidirectional sensing property of the ultrawideband distance sensors and a deep learning-based bearing detection algorithm in a filter. The entire system leads to a closed-loop perception-decision framework, whose stability and convergence properties are analyzed exploiting its modular structure. Remarkably, the drones do not use a common reference frame. We verified the framework through extensive simulations in a realistic environment. Furthermore, we conducted real world experiments using two drones and proved the applicability of the proposed framework. We conjecture that our solution will prove useful in the realization of future drone swarms.
Next generation sequencing of a novel Loigolactobacillus coryniformis FOL-19 isolated from cheese and comparative genomic analysis with other L. coryniformis strains
(Abdullah Gül Üniversitesi, Fen Bilimleri Enstitüsü, 2023) Gümüştop, İsmail; AGÜ, Fen Bilimleri Enstitüsü, Biyomühendislik Ana Bilim Dalı
Loigolactobacillus coryniformis is a member of lactic acid bacteria isolated from various ecological niches. We isolated a novel L. coryniformis strain FOL-19 from artisanal Tulum cheese and performed the whole-genome sequencing for FOL-19 using Illumina NextSeq. Then, genomic characterization of FOL-19 against ten available whole genome sequences of the same species isolated from kimchi, silage, fermented meat, air of cowshed, and dairy was performed. The average genome size of 2.93 ±0.1 Mb, GC content of 42.96% ±0.002, number of CDS of 2905 ±165, number of tRNA of 56 ±10, and number of CRISPR elements of 6.55 ±1.83 was achieved. Both Type I and II Cas clusters were observed in L. coryniformis. Only one strain (CECT 5711) was predicted to encode a Carnocin CP52 bacteriocin gene cluster. The presence of CRISPR elements and Cas clusters suggests that L. coryniformis holds a promising potential for being a reservoir for new CRISPR-based tools. These findings put a step forward for the genomic characterization of L. coryniformis strains for biotechnological applications via genome-guided strain selection to identify industrially relevant traits.
Pre-concentration of Municipal Wastewater Using Flocculation-Assisted Direct Ceramic Microfiltration Process: Optimization of Operational Conditions
(SPRINGER INT PUBL AG, 2022) Ozcan, Ozlem; Sahinkaya, Erkan; Uzal, Nigmet; 0000-0002-0912-3459; AGÜ, Mühendislik Fakültesi, İnşaat Mühendisliği Bölümü; Uzal, Niğmet; Özcan, Özlem
Direct ceramic microfiltration (DCMF) is an effective technology to pre-concentrate organic matter (OM) for the subsequent anaerobic energy-recovering processes and a fast, cost-effective, easy treatment process for municipal wastewater. The major problem in DCMF is the rapid fouling of the membrane. In this study, to maximize OM recovery rates and prevent membrane fouling, the DCMF process was alternately paired with dosing of a cationic polyacrylamide (PAM) flocculant and chemically enhanced primary sedimentation (CEPS). The DCMF process tested in three stages: (i) optimization of flocculant concentration (0.5, 1, 1.5, and 2 mg/L PAM) and dosing point, (ii) optimization of operational conditions (pH, filtration/backwash duration, flux, and recovery rate) to control membrane fouling, and (iii) long-term operation of the DCMF process. The influence of PAM dosage points on DCMF fouling behavior was explored, and system operating parameters in terms of OM recovery and TMP change were optimized. The CEPS + DCMF setup was discovered to be a potential option for overcoming fouling. The highest chemical oxygen demand (COD) was 520 +/- 20 mg/L in the concentrated wastewater using CEPS + DCMF experiments for 0.5 mg/L PAM. The highest OM pre-concentration was achieved at 90% recovery rate. After the optimization, COD concentration in the concentrate of the DCMF process reached 822 mg/L for the long-term (20 days) operation. The net potential energy production was calculated as 0.28 kWh/m(3) considering the theoretical COD of 1432 mg/L in the concentrate stream. As a novel approach, the CEPS + DCMF process can be used in place of conventional municipal wastewater treatment processes due to its acceptable OM removal performance, simple operation, small footprint, and potential energy generation.
Robust Multicriteria Sustainability Assessmentin Urban Transportation
(ASCE-AMER SOC CIVIL ENGINEERS, 2023) Gulcimen, Sedat; Aydogan, Emel Kizilkaya; Uzal, Nigmet; 0000-0002-8967-3484; 0000-0002-0912-3459; AGÜ, Mühendislik Fakültesi, İnşaat Mühendisliği Bölümü; Gulcimen, Sedat; Uzal, Nigmet
Developing methodologies to facilitate the planning of sustainable transport systems for decision makers (DMs) is becoming more critical. This study proposed a methodological framework for sustainable urban transportation to make decisions during urban transportation's design and planning stages. Urban transportation alternatives were evaluated by sustainability indicators that considered a triple bottom line approach's environmental, economic, and social aspects. To choose the best alternative sustainable transportation scenarios, two multicriteria decision-making (MCDM) methods, for example, a hesitant fuzzy analytical hierarchy process (HF-AHP) and multiple attribute utility model (MAUT), were integrated. First, eight sustainable transportation indicators that considered data availability from the transport sector were selected. The weights of the selected indicators were calculated using an HF-AHP. These indicators included carbon dioxide (CO2) emissions, energy consumption, depletion of nonrenewable resources, operational and maintenance costs, fuel and taxes, the number of fatalities or injuries, and motor vehicles for public transport per 10,000 population. Finally, sensitivity analysis was applied to validate the robustness. Based on HF-AHP results, the number of fatalities or injuries was the most significant among the eight indicators, with a 0.158 normalized weight (N-i). The results of this integrated methodology highlighted that Alternative 11, which was dominated by low-motorized vehicles (low-MVs), was the best sustainable alternative and Alternative 1 was the worst sustainable alternative, which was dominated by high-MVs with 0.69 and 0.27 total utility values, respectively. Low-motorized urban transportation alternatives showed higher sustainable performances than the motorized and high-motorized alternatives. This study proposed a novel and robust methodology for decisions on sustainable urban transportation projects and renovating current urban transportation systems.

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