Scopus İndeksli Yayınlar Koleksiyonu
Permanent URI for this collectionhttps://hdl.handle.net/20.500.12573/395
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Article Citation - Scopus: 1Machine Learning and Scenario-Based Forecasting of Türkiye’s Renewable Energy Transition toward Net-Zero 2053(Elsevier Ltd, 2026-05) Sutcu, Muhammed; Yildiz, Baris; Sahin, Nurettin; Almomany, Abedalmuhdi; Gulbahar, Ibrahim TumayThe issue of global warming has been identified as one of the most critical challenges of the 21st century, with the consumption of fossil fuels being identified as a major contributor to greenhouse gas emissions. In response to these challenges, countries worldwide are expediting their transition towards renewable energy sources to meet international climate commitments, such as the Paris Agreement, and to achieve long-term sustainability goals. Türkiye has established a target to achieve net-zero emissions by 2053. This objective is consistent with both the nation's domestic energy strategy and its international commitments. Nevertheless, the transition from fossil fuels to renewable energy sources is impeded by geographical, economic, and technological constraints. The present study aims to assess the capacity and efficiency of renewable energy in Türkiye with environmental protocols and future electricity demand projections. Electricity generation, transmission data, and national energy plans are used to identify future electricity generation and capacity trends. In the context of this study, a range of machine learning models is executed across diverse scenarios, yielding a series of outcomes. Consequently, the repercussions of regulatory measures and financial investments were examined, and prospective inferences were derived. The findings underscore the pivotal role of scenario-based modeling in formulating sustainable energy policies and directing investment decisions within the context of climate change mitigation.Article Citation - Scopus: 2Prediction of Colorectal Cancer Based on Taxonomic Levels of Microorganisms and Discovery of Taxonomic Biomarkers Using the Grouping-Scoring (G-S-M) Approach(Elsevier Ltd, 2025-03) Bakir-Güngör, Burcu; Temiz, Mustafa; Canakcimaksutoglu, Beyza; Yousef, MalikColorectal cancer (CRC) is one of the most prevalent forms of cancer globally. The human gut microbiome plays an important role in the development of CRC and serves as a biomarker for early detection and treatment. This research effort focuses on the identification of potential taxonomic biomarkers of CRC using a grouping-based feature selection method. Additionally, this study investigates the effect of incorporating biological domain knowledge into the feature selection process while identifying CRC-associated microorganisms. Conventional feature selection techniques often fail to leverage existing biological knowledge during metagenomic data analysis. To address this gap, we propose taxonomy-based Grouping Scoring Modeling (G-S-M) method that integrates biological domain knowledge into feature grouping and selection. In this study, using metagenomic data related to CRC, classification is performed at three taxonomic levels (genus, family and order). The MetaPhlAn tool is employed to determine the relative abundance values of species in each sample. Comparative performance analyses involve six feature selection methods and four classification algorithms. When experimented on two CRC associated metagenomics datasets, the highest performance metric, yielding an AUC of 0.90, is observed at the genus taxonomic level. At this level, 7 out of top 10 groups (Parvimonas, Peptostreptococcus, Fusobacterium, Gemella, Streptococcus, Porphyromonas and Solobacterium) were commonly identified for both datasets. Moreover, the identified microorganisms at genus, family, and order levels are thoroughly discussed via refering to CRC-related metagenomic literature. This study not only contributes to our understanding of CRC development, but also highlights the applicability of taxonomy-based G-S-M method in tackling various diseases. © 2025 Elsevier B.V., All rights reserved.Article Citation - Scopus: 49EdgeAISim: A Toolkit for Simulation and Modelling of AI Models in Edge Computing Environments(Elsevier Ltd, 2024-02) Nandhakumar, Aadharsh Roshan; Baranwal, Ayush; Choudhary, Priyanshukumar; Golec, Muhammed; Gill, Sukhpal SinghTo meet next-generation Internet of Things (IoT) application demands, edge computing moves processing power and storage closer to the network edge to minimize latency and bandwidth utilization. Edge computing is becoming increasingly popular as a result of these benefits, but it comes with challenges such as managing resources efficiently. Researchers are utilising Artificial Intelligence (AI) models to solve the challenge of resource management in edge computing systems. However, existing simulation tools are only concerned with typical resource management policies, not the adoption and implementation of AI models for resource management, especially. Consequently, researchers continue to face significant challenges, making it hard and time-consuming to use AI models when designing novel resource management policies for edge computing with existing simulation tools. To overcome these issues, we propose a lightweight Python-based toolkit called EdgeAISim for the simulation and modelling of AI models for designing resource management policies in edge computing environments. In EdgeAISim, we extended the basic components of the EdgeSimPy framework and developed new AI-based simulation models for task scheduling, energy management, service migration, network flow scheduling, and mobility support for edge computing environments. In EdgeAISim, we have utilized advanced AI models such as Multi-Armed Bandit with Upper Confidence Bound, Deep Q-Networks, Deep Q-Networks with Graphical Neural Network, and Actor-Critic Network to optimize power usage while efficiently managing task migration within the edge computing environment. The performance of these proposed models of EdgeAISim is compared with the baseline, which uses a worst-fit algorithm-based resource management policy in different settings. Experimental results indicate that EdgeAISim exhibits a substantial reduction in power consumption, highlighting the compelling success of power optimization strategies in EdgeAISim. The development of EdgeAISim represents a promising step towards sustainable edge computing, providing eco-friendly and energy-efficient solutions that facilitate efficient task management in edge environments for different large-scale scenarios. © 2023 Elsevier B.V., All rights reserved.Article Citation - Scopus: 4CCPred: Global and Population-Specific Colorectal Cancer Prediction and Metagenomic Biomarker Identification at Different Molecular Levels Using Machine Learning Techniques(Elsevier Ltd, 2024-11) Bakir-Güngör, Burcu; Temiz, Mustafa; Inal, Yasin; Cicekyurt, Emre; Yousef, MalikColorectal cancer (CRC) ranks as the third most common cancer globally and the second leading cause of cancer-related deaths. Recent research highlights the pivotal role of the gut microbiota in CRC development and progression. Understanding the complex interplay between disease development and metagenomic data is essential for CRC diagnosis and treatment. Current computational models employ machine learning to identify metagenomic biomarkers associated with CRC, yet there is a need to improve their accuracy through a holistic biological knowledge perspective. This study aims to evaluate CRC-associated metagenomic data at species, enzymes, and pathway levels via conducting global and population-specific analyses. These analyses utilize relative abundance values from human gut microbiome sequencing data and robust classification models are built for disease prediction and biomarker identification. For global CRC prediction and biomarker identification, the features that are identified by SelectKBest (SKB), Information Gain (IG), and Extreme Gradient Boosting (XGBoost) methods are combined. Population-based analysis includes within-population, leave-one-dataset-out (LODO) and cross-population approaches. Four classification algorithms are employed for CRC classification. Random Forest achieved an AUC of 0.83 for species data, 0.78 for enzyme data and 0.76 for pathway data globally. On the global scale, potential taxonomic biomarkers include ruthenibacterium lactatiformanas; enzyme biomarkers include RNA 2′ 3′ cyclic 3′ phosphodiesterase; and pathway biomarkers include pyruvate fermentation to acetone pathway. This study underscores the potential of machine learning models trained on metagenomic data for improved disease prediction and biomarker discovery. The proposed model and associated files are available at https://github.com/TemizMus/CCPRED. © 2024 Elsevier B.V., All rights reserved.Article Citation - Scopus: 8Building a Challenging Medical Dataset for Comparative Evaluation of Classifier Capabilities(Elsevier Ltd, 2024-08) Bozkurt, Berat; Coskun, Kerem; Bakal, GokhanSince the 2000s, digitalization has been a crucial transformation in our lives. Nevertheless, digitalization brings a bulk of unstructured textual data to be processed, including articles, clinical records, web pages, and shared social media posts. As a critical analysis, the classification task classifies the given textual entities into correct categories. Categorizing documents from different domains is straightforward since the instances are unlikely to contain similar contexts. However, document classification in a single domain is more complicated due to sharing the same context. Thus, we aim to classify medical articles about four common cancer types (Leukemia, Non-Hodgkin Lymphoma, Bladder Cancer, and Thyroid Cancer) by constructing machine learning and deep learning models. We used 383,914 medical articles about four common cancer types collected by the PubMed API. To build classification models, we split the dataset into 70% as training, 20% as testing, and 10% as validation. We built widely used machine-learning (Logistic Regression, XGBoost, CatBoost, and Random Forest Classifiers) and modern deep-learning (convolutional neural networks - CNN, long short-term memory - LSTM, and gated recurrent unit - GRU) models. We computed the average classification performances (precision, recall, F-score) to evaluate the models over ten distinct dataset splits. The best-performing deep learning model(s) yielded a superior F1 score of 98%. However, traditional machine learning models also achieved reasonably high F1 scores, 95% for the worst-performing case. Ultimately, we constructed multiple models to classify articles, which compose a hard-to-classify dataset in the medical domain. © 2024 Elsevier B.V., All rights reserved.