TR Dizin İndeksli Yayınlar / TR Dizin Indexed Publications Collection
Permanent URI for this collectionhttps://hdl.handle.net/11147/7149
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Article Ai-Assisted Survival Prediction in Colorectal Cancer: a Clinical Decision Support Tool(Dokuz Eylul Univ inst Health Sciences, 2024) Misirlioglu, Huseyin Koray; Leblebici, Asim; Calibasi-Kocal, Gizem; Ellidokuz, Hulya; Basbinar, YaseminPurpose: This study was planned to determine the problems and affecting factors that children encounter Purpose: Colorectal cancer (CRC) is a leading cause of cancer-related mortality worldwide. Accurate survival prediction is crucial for advanced-stage patients to optimize treatment strategies and improve clinical outcomes. This study aimed to develop an artificial intelligence-assisted clinical decision support system (CDSS) for survival prediction in CRC patients using clinical and genomic data from the Cancer Genome Atlas Colon Adenocarcinoma Collection (TCGA-COAD) dataset. Methods: Machine learning algorithms, including C4.5 Decision Tree, Support Vector Machines (SVM), Random Forest, and Naive Bayes, were employed to create survival prediction models. Clinical parameters and genomic data from key pathways, such as glycolysis/gluconeogenesis and mTORC1, were integrated into the models. The models were evaluated based on accuracy and performance. Results: The Random Forest algorithm achieved the highest accuracy (82.3%) when only clinical parameters were used. When clinical data were combined with gene expression data, the model's accuracy increased further. The resulting models were incorporated into a user-friendly web interface, SurvCOCA, for clinical use. Conclusions: This study demonstrates the potential of AI-based tools to improve prognosis predictions in CRC patients. Further research is needed, with larger datasets and additional machine learning algorithms, to enhance clinical decision-making and optimize treatment strategies.Article Citation - Scopus: 1Anomalous Crustal Structure Beneath the Örenli-Eğiller Depression Zone, Inferred From Magnetotelluric Studies, Western Anatolia, Türkiye(TÜBİTAK - Türkiye Bilimsel ve Teknolojik Araştırma Kurumu, 2024) Chandrasekharam, Dornadula; Raju, K.; Subba Rao, P.B.V.; Baba, AlperIn Türkiye, the prevalence of high radiogenic granites makes them ideal locations for initiating enhanced geothermal system (EGS) projects. One such occurrence of these granites is observed in the Kozak area of the Bergama region. To assess the energy potential of this site, a magnetotelluric (MT) survey was conducted, focusing on determining the depth distribution of the intrusive granite. The survey employed dimensionality analysis, utilizing Bahr skew and phase tensor analyses that denote a 2D subsurface nature up to 100 s and beyond that a 3D nature. In the present study, we interpreted MT data up to 100 s. The data collected, including rotated impedance tensors and tippers, were inverted using a nonlinear conjugate gradient algorithm integrated into the MT interpretation software of the WinG Link 2D inversion data modeling package. Multiple homogeneous half-space initial models were tested during the 2D inversion process. The findings indicate the existence of a midcrustal conductor associated with graphites and iron sulfides in the source region. This conductivity may be attributed to processes such as exsolution of metamorphic fluids, influx of mantle sources, or the entry of magmatic fluids through transcrustal fault zones. The findings indicate that the intrusive granite was emplaced along a NE–SW major fault, penetrating shallow crustal levels. The depth of this granite intrusion is determined to be 15 km, covering an outcrop area of 60 km². This detailed geological information allows a comprehensive assessment of the power-generating capacity of the intrusive granite. The results of this investigation contribute valuable insights for the development and optimization of Enhanced Geothermal System (EGS) projects in the region. © 2024, TUBITAK. All rights reserved.Article Stochastic 1-D Reactive Transport Simulations To Assess Silica and Carbonate Phases During the $co_2$ Reinjection Process in Metasediments(TÜBİTAK - Türkiye Bilimsel ve Teknolojik Araştırma Kurumu, 2024) Erol, SelçukOne proposed method to mitigate carbon emission is to mineralize the $CO_2$ in deep geothermal reservoirs while mixing the coproduced CO2 with the effluent fluid for reinjection. The injection fluid temperature fluctuates due to the mixing process between CO2-charged water and the effluent fluid, and compressor interruptions change the thermodynamic conditions that influence the fluid- rock interaction in the reservoir. Mineral dissolution or precipitations are associated with changes in permeability and porosity that affect the flow and, eventually, the lifespan of the reservoir. A combined stochastic–reactive transport simulation approach is useful for inspection purposes. Moreover, the stochastic algorithm validates the deterministic reactive transport simulation and demonstrates the time evolution of a chemically reacting system in the reservoir. This study examines a range of injection temperatures between 80 °C and 120 °C to evaluate silica and calcite precipitation along a flow path. One-dimensional (1-D) reactive transport and compartment- based stochastic reaction-diffusion-advection Gillespie algorithms are carried out. The 1-D model represents a reservoir feed zone of around 2300 m. Two common metasediment rock types are evaluated for inspection. The first one is the muscovite schist, which has approximately 60% quartz, and the second is the quartz schist, consisting of roughly 90% quartz. The stochastic method can be applied more effectively if the chemical system is completely defined with proper reaction rates as a function of temperature. The mixing ratio of the coproduced $CO_2$ over the effluent fluid is around 0.0028. Simulation results show that $CO_2$ is partially sequestrated as calcite within the first 10 m of the entrance to the reservoir and plugs the pores completely in the muscovite schist scenario. Chalcedony and α-cristobalite precipitate as secondary minerals evenly along the flow path. $CO_2$ injection into a quartz schist layer is more appropriate for geochemical interactions below 120 °C.Article Citation - Scopus: 2Application of Endurance Time Method in Seismic Assessment of Rc Frames Designed by Direct Displacement-Based Procedure(Turkish Chamber of Civil Engineers, 2024) Karımzada, Nisar Ahmad; Shırkhanı, Amir; Aktaş, EnginThis paper addresses the Direct Displacement-Based Design (DDBD) approach of multi-story RC frame structures consistent with changes to design criteria between Turkish earthquake codes of TSC-2007 and TBEC-2018. The corresponding response modification factor (R) of structures designed based on the DDBD approach is also estimated in this research. The design base shear forces of both codes are compared considering different R factors and also with that of the DDBD approach. The results showed that the DDBD approach, as per TBEC-2018, provides RC frame structures with higher R values compared to the similar approach in accordance with TSC-2007. The Endurance Time (ET) method is a time history-based procedure for seismic assessment of structures under intensifying dynamic excitations aided to judge their performance at various intensity levels. Since, up to now, the ET method has not been considered to evaluate the performance of the structures designed by the DDBD approach, this paper addresses this issue. The ET performance curves of RC frames show that structures designed by the DDBD approach in accordance with TBEC-2018 exhibit higher Interstory Drift Ratios (IDRs) values than TSC-2007 at various hazard levels.Article Blank Frame and Intensity Variation Distortion Detection and Restoration Pipeline for Phase-Contrast Microscopy Time-Lapse Images(Aves, 2024) Ucar, Mahmut; Iheme, Leonardo O.; Onal, Sevgi; Pesen-Okvur, Devrim; Yalcin-Ozuysal, Ozden; Toreyin, Behcet U.; Unay, DevrimIn this study, we propose a preprocessing pipeline for the detection and correction of distorted frames in time-lapse images obtained from phase-contrast microscopy. The proposed pipeline employs the average intensities of frames as a foundational element for the analysis. In order to evaluate the degree of correction required for intensity variance, a normalization technique is applied to the difference between the average intensity of a specific frame and the median average intensity of all frames within the study. Our restoration method increases the histogram similarity between the distorted and non-distorted frames, preserves trans-passing pixels in regions of interest, and mitigates the development of additional distortions. The efficacy of the proposed method was evaluated using 15 395 time-lapse image frames from 27 experiments using our own dataset and 830 time-lapse images from four different experiments obtained from the cell tracking challenge. The results of the validation demonstrate a high degree of numerical and visual accuracy of the proposed pipeline.Article Citation - Scopus: 3A Brief Overview on Geothermal Scaling(General Directorate of Mineral Research and Exploration (MTA), 2023) Isık, Tuğba; Baba, Alper; Chandrasekharam, Dornadula; Demir, Mustafa M.; Isık, Tuğba; Baba, Alper; Demir, Mustafa MuammerHot spring waters are rich in terms of minerals. Since there are dramatic changes in thermodynamic parameters in geothermal power plants, such as a decrease in temperature and pressure, severe precipitation occurs throughout the system components in an uncontrolled manner. There are three main chemistries in deposits: carbonates (mainly calcium carbonates), silicates (metal silicates), and sulphides (antimony sulphide-stibnite). Energy harvesting is remarkably reduced out of the insulating nature of the deposit. Various actions need to be taken to mitigate this undesirable issue of scaling in geothermal systems. Geothermal systems are in fact quite complex, and the composition of brine and, accordingly, the chemistry of the deposit are not identical. Therefore, each system should be studied individually, and a tailor-made remedy should be developed. In this overview, the types of deposits in terms of chemistry and the actions (pH modification or antiscalant dosing) that should be taken to reduce scaling are mentioned, and potential chemistries of antiscalants are given.Article Citation - WoS: 1Citation - Scopus: 2Geothermal Power Corridor-Connecting the Middle East Countries(Maden Tetkik ve Arama Genel Mudurlugu-mta, 2023) Chandrasekharam, DornadulaThe Middle East economy and life depend on imports, be it food, water, or energy, despite each country in the region having enormous energy resources to exploit and reduce dependency on countries outside the region and develop a socioeconomic model of regional cooperation and synergy. An estimated 371 TWh of electricity available from geothermal energy resources can be utilized by these countries to support basic needs and be free from food-energy-water imports by sharing their energy resources. The total amount of CO2 emissions from these countries is currently 945 x 106 kg, so these countries can further earn about 92 million euros from carbon savings, by using geothermal energy along this corridor. This amount can be utilized for augmenting the energy supply from geothermal sources. In this work, the available geothermal resources are evaluated, and suggestions are made how this energy can be best utilized for peaceful existence and cooperation in the region.Article Citation - WoS: 6Citation - Scopus: 8The Potential, Utilization and Development of Geothermal Energy in Türkiye(Maden Tetkik ve Arama Genel Mudurlugu-mta, 2023) Sener, Mehmet Furkan; Uzelli, Taygun; Akkus, Ibrahim; Mertoglu, Orhan; Baba, AlperGeothermal energy is a natural resource that can be utilized directly or by converting to other types of energy. Considering the diversity of the geological structure of Turkiye, the geothermal systems have developed depending on young tectonic and volcanic active rock. Western and Central Anatolia are especially rich in geothermal resources. The geothermal well with the hottest well-bottom temperature was drilled in Central Anatolia, and the well-bottom temperature was measured as 341 degrees C at a depth of 3845 meters. In 2022, Turkiye's electricity generation capacity and the total installed direct heat use reached 1663 MWe and 5113 MWt, respectively. Considering Anatolia's Curie depth and heat flux, the probable thickness of the batholith can be regarded as 10 km. For example, the total granitoid area of Western Anatolia is 4221 km2 and at least 2% of this granitoid can provide approximately 8x107 MWh of electricity by Enhanced Deep Geothermal Systems (EDGS). When all granites in Turkiye are considered, it is expected that the future capacity of Turkiye will be much higher with drilling research and development studies and the discovery of new fields. This capacity will exceed 100.000 MWt levels in the medium term, especially with the addition of EDGSs.Review Citation - WoS: 13Citation - Scopus: 13A Review on Battery Thermal Management Strategies in Lithium-Ion and Post-Lithium Batteries for Electric Vehicles(Yıldız Technical University, 2023) Güngör, Şahin; Göçmen, Sinan; Çetkin, ErdalElectrification on transportation and electricity generation via renewable sources play a vital role to diminish the effects of energy usage on the environment. Transition from the conven- tional fuels to renewables for transportation and electricity generation demands the storage of electricity in great capacities with desired power densities and relatively high C-rate values. Yet, thermal and electrical characteristics vary greatly depending on the chemistry and struc- ture of battery cells. At this point, lithium-ion (Li-ion) batteries are more suitable in most applications due to their superiorities such as long lifetime, high recyclability, and capacities. However, exothermic electrochemical reactions yield temperature to increase suddenly which affects the degradation in cells, ageing, and electrochemical reaction kinetics. Therefore, strict temperature control increases battery lifetime and eliminates undesired situations such as lay- er degradation and thermal runaway. In the literature, there are many distinct battery thermal management strategies to effectively control battery cell temperatures. These strategies vary based on the geometrical form, size, capacity, and chemistry of the battery cells. Here, we focus on proposed battery thermal management strategies and current applications in the electric vehicle (EV) industry. In this review, various battery thermal management strategies are doc- umented and compared in detail with respect to geometry, thermal uniformity, coolant type and heat transfer methodology for Li-ion and post-lithium batteries.Article Citation - WoS: 1Kent Plancısının Politik Rolü: Türkiye Deneyiminden Çıkarımlar(TMMOB Şehir Plancıları Odası, 2023) Özdemir, EsinBu makale, planlama yazınında giderek önem kazanan kent plan- cısının politik rolüne odaklanmaktadır. Amacı, ilk olarak, özellikle teknokrat ve iletişimci/müzakereci plancı rollerine bir alternatif olarak savunulan plancının politik rolünün pratikteki anlamını ve somut düzeyde oluşabilecek politik rolleri ortaya koymak; ikinci olarak da, bunların karşısına çıkan olanak ve engelleri Türkiye ör- neği üzerinden tartışmaktır. Makale öncelikle politik rolün kuram- sal temellerine bakmakta, siyaset felsefesi alanındaki tartışmaları temel alarak, ‘politik olan nedir?’ sorusu üzerinde durmaktadır. Daha sonra, politik rolün planlama yazınındaki yerine bakılmakta ve iletişimsel planlamaya bu rol çerçevesinde yapılan eleştirilere yer verilmektedir. Bir sonraki bölümde; rant yaratma odaklı kentsel dönüşüm tehdidi altındaki mahallelere plancılar tarafından destek verme ve refakat etme süreçlerinde, yine plancılar tarafından ka- musal alanları savunmaya yönelik yürütülen muhalefet süreçlerinde ve Şehir Plancıları Odası tarafından neoliberal kentsel projelere karşı açılan davaları merkezine alan yasal süreçlerde somut anlam- da ortaya çıkan politik roller irdelenmektedir. Bu kapsamda; refa- katçi rol, kamusal alanları savunucu/aktivist rol ve yasal mücadeleci rol olmak üzere üç farklı politik rol ortaya konulmaktadır. Sonuç olarak makale, plancının teknokrat ve iletişimci/müzakereci rolü- nün yanında, planlama kararlarının veya mekânsal müdahalelerin niteliğine göre farklılaşan politik rollerinin de olduğunu savunmakta ve bu rollerin planlamanın demokratikleşmesi açısından gerekliliği- ni ortaya koymaktadır. Bununla birlikte, makale, plancının politik rolünün zaman boyutuna, diğer plancı rolleri ile ilişkiselliğine ve son olarak da sürekliliğine ve gücüne ilişkin çıkarımlarda bulunmaktadır.