Scopus İndeksli Yayınlar Koleksiyonu / Scopus Indexed Publications Collection
Permanent URI for this collectionhttps://hdl.handle.net/11147/7148
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Article AI-Supported Seismic Performance Evaluation of Structures: Challenges, Gaps, and Future Directions at Early Design Stages(Elsevier Sci Ltd, 2026) Ak, Fatma; Ekici, Berk; Demir, UgurThis study reviews 91 journal articles that intersect with earthquake-resistant building design and artificial intelligence (AI)- based modeling, utilizing machine learning, deep learning, and metaheuristic optimization algorithms. Previous reviews on AI applications have examined engineering problems without considering the impact of architectural design parameters and structural irregularities on seismic performance. This review discusses the role of AI in integrating architectural design variables and seismic performance objectives, highlighting challenges, gaps, and future directions in the early design phase. The reviewed articles demonstrate that AI is successful in addressing seismic performance objectives; however, a holistic framework for assessing architectural and structural variables has not been presented. The review highlights key findings, gaps, and future directions for those involved in earthquake-resistant building design utilizing AI.Article Artificial Intelligence for Improving Thermal Comfort through Envelope Design in Residential Buildings: Recent Developments and Future Directions(Elsevier Science Sa, 2026) Bayraktar, Arda; Ekici, BerkEnvelopes are vital components for improving thermal comfort in almost all building typologies. Yet, the design and analysis of envelopes are complex, as they involve multiple aspects and various parameters, ensuring comfort standards. Improving thermal comfort in residential buildings is within the scope of researchers to suggest sustainable design alternatives that consider multiple performance aspects and design parameters. Previous review articles have focused on improving thermal performance in residential buildings from the perspective of envelope technology, materials, and design strategies. However, none of them investigated current developments using artificial intelligence (AI), which inevitably supports decision-making in complex circumstances for a sustainable built environment. This review examines the contribution of AI methods, which consist of metaheuristic optimization and machine learning algorithms as sub-branches, to envelope parameters. The paper systematically reviews 95 relevant works on AI, including early approaches, to provide a comprehensive overview of current developments, following PRISMA guidelines. The results showed that early applications considered conventional approaches to improve thermal comfort and energy performance, which mostly limit the results to specified cases. On the other hand, studies utilizing AI methods dealt with numerous parameters, allowing them to cope with complex envelope systems in a reasonable amount of time. The study addresses relevant research questions related to the trends, research methods, system types, AI methods, data types, and their relation to performance and envelope parameters. The study also provides actionable insight, underlining gaps and future works for utilizing machine learning methods in the reviewed research domain.Article Development and Validation of Regression Model via Machine Learning to Estimate Thermal Conductivity and Heat Flow Using Igneous Rocks from the Dikili-Bergama Geothermal Region, Western Anatolia(Pergamon-Elsevier Science Ltd, 2026) Ayzit, Tolga; Sahin, Onur Gungor; Erol, Selcuk; Baba, AlperThermal conductivity is a fundamental parameter that significantly influences the thermal regime of the lithosphere. It plays a crucial role in a variety of geological applications, including geothermal energy exploration, igneous system assessment, and tectonic modeling. In this study, a machine learning approach is used to predict the thermal conductivity of igneous rocks based on the composition of major oxides. A total of 488 samples from different regions of the world were analyzed. The thermal conductivity values ranged from 1.20 to 3.74 Wm(-1) K-1 and the mean value was 2.61 Wm(-1) K-1. The Random Forest (RF) algorithm was used, resulting in a high coefficient of determination (R-2 = 0.913 for training and R-2 = 0.794 for testing) and a root mean square error (RMSE) of 0.112 and 0.179, respectively. Significance analysis of the traits identified SiO2 (>40 %), Na2O (>15 %) and Al2O3 (>10 %) as the most influential predictors. The study presented results from the Western Anatolia region, where felsic rocks had the highest thermal conductivity (mean = 2.69 Wm(-)(1)K(-)(1)) compared to mafic (mean = 2.34 Wm(-)(1)K(-)(1)) and ultramafic rocks (mean = 2.39 Wm(-)(1)K(-)(1)). In addition, the study evaluated the predictive capabilities of machine learning models for the igneous rocks of the Dikili-Bergama region and compared the results with those of saturated models. Using these data, we calculated heat flow values of up to 400 mWm(-2) under saturated conditions in western Anatolia. These results highlight the value of integrating geochemical data with machine learning to improve geothermal resource exploration and lithospheric modeling.Article A Knowledge-Driven Computer Vision Framework for Automated Atomic Force Microscopy Surface Characterization(Elsevier Science Ltd, 2026) Deveci, D. Gemici; Barandir, T. Karakoyun; Unverdi, O.; Celebi, C.This study presents an innovative analytical framework developed to automate Atomic Force Microscopy (AFM)-based surface characterization. The proposed methodology integrates computer vision (CV) algorithms and machine learning (ML) techniques to overcome the limitations of conventional observer-dependent approaches and visual inspection methods. In the first stage of the two-step data processing pipeline, raw AFM signals were converted into structured datasets, correspondences between images acquired under different loading conditions were identified, and drift effects in both direction and magnitude were predicted using a LightGBM-based machine learning (ML) model to guide subsequent analytical processes. This process establishes a unified coordinate reference across varying force levels, enabling pixel-level comparability of surface maps. In the second stage, the aligned datasets are systematically analyzed through block-based local maxima detection, edge-based contour extraction, morphological filtering, and skeletonization algorithms. In this way, ridge-like surface features are reliably identified and quantitatively evaluated along their axes under varying force conditions. The framework ensures data integrity while enabling high-resolution and reproducible analyzes. Beyond its automation capability, it is distinguished by its integrated, modular architecture, where each component operates sequentially along a unified processing pipeline. The methodology was validated using epitaxial monolayer graphene grown on the C-face of SiC, successfully demonstrating its ability to resolve both geometric and force-dependent mechanical responses. In this regard, the proposed system extends beyond conventional cross-sectional analysis by providing a drift-aware, knowledge-guided compensation mechanism and directionally resolved evaluation, offering a robust, automation-ready infrastructure for nanoscale surface characterization.Article An Alternative Software Benchmarking Dataset: Effort Estimation With Machine Learning(Elsevier Science Inc, 2026) Yurum, Ozan Rasit; Unlu, Huseyin; Demirors, OnurEffort estimation plays a vital role in software project planning, as accurate estimates of required human resources are essential for success. Traditional estimation models often depend on historical size and effort data, yet organizations frequently struggle to access reliable effort records. Public benchmarking datasets like ISBSG offer useful data but may lack coverage or involve licensing fees. To address this issue, we previously introduced a free, extendable benchmarking dataset that integrates functional size and effort data extracted from 18 studies. In this study, we examine the effectiveness of our dataset for predictive effort estimation and compare it with the widely used ISBSG dataset. Our analysis includes 337 records from our dataset and 732 ISBSG projects, focusing on those with COSMIC size data. We first developed and compared models using linear regression and nine machine learning algorithms - Bayesian Ridge, Ridge Regression, Decision Tree, Random Forest, XGBoost, LightGBM, k-Nearest Neighbors, Multi-Layer Perceptron, and Support Vector Regression. Then, we selected the best-performing models and applied them to an unseen evaluation dataset to assess their generalization performance. The results show that machine learning performance varies based on evaluation method and dataset characteristics. Despite having fewer records, our dataset enabled more accurate predictions than ISBSG in most cases, highlighting its potential for effort estimation. This study demonstrates the viability of our dataset for building predictive models and supports the use of machine learning in improving estimation accuracy. Expanding this dataset could offer a valuable, open-access resource for organizations seeking effective and lowcost estimation solutions.Article Comprehensive Analysis and Machine Learning-Based Solutions for Drift Behavior in Ambient Atomic Force Microscope Conditions(Pergamon-Elsevier Science Ltd, 2025) Deveci, D. Gemici; Barandir, T. Karakoyun; Unverdi, O.; Celebi, C.; Temur, L. O.; Atilla, D. C.This study outlines the effectiveness of combining numerical methods, Computer Vision (CV) and Machine Learning (ML) approaches to analyze and predict drift behavior in high-resolution Atomic Force Microscope (AFM) scanning procedures. Using Long Short-Term Memory (LSTM) models for time series analysis and the Light Gradient Boosting Machine (LightGBM) algorithm for predictive modeling, significant progress was achieved in understanding the dynamic and variable nature of drift and mitigating its impact on scanning. The models demonstrated a robust predictive capability, achieving approximately 94% accuracy in drift predictions. The study emphasizes the nonstationary characteristics of drift and demonstrates how the selection of features directly related to the target variable enhances the efficiency of the model and enables adaptive real-time correction. These findings confirm the predictive strength of the models and highlight the potential for integrating ML predictions with real-time feedback mechanisms to improve the resolution and stability of AFM imaging in both scientific and industrial applications.Article Citation - WoS: 2Citation - Scopus: 1A Novel Framework for Droplet/Particle Size Distribution in Suspension Polymerization Using Physics-Informed Neural Network (PINN)(Elsevier Science Sa, 2025) Turan, Meltem; Dutta, AbhishekA Machine Learning (ML) based neural network can capture the complex evolution of polymer chain distributions, accounting for factors such as initiation, propagation, and termination steps in a suspension polymerization process, by integrating stagewise molar balance model (MBM) and population balance model (PBM) with Physics-Informed Neural Network (PINN). The integrated PINN framework is proposed to efficiently solve these equations, incorporating known physical laws as constraints and minimizing errors in both the distribution and dynamics of the polymer chains. By optimizing the neural network parameters such as weight matrices and bias vector, the model reproduces the moments of the polymer molecular weight distribution in close alignment with numerical solutions, and it generates population balance solutions that exhibit excellent agreement with their analytical counterparts. Sensitivity analyses for the depth of the neural network architecture to quantify how structural choices affect model fidelity has been performed. The resulting MBM-PINN and PBM-PINN integrated framework demonstrates robustness and versatility in accurately capturing (96-97%) droplet/particle dynamics. The proposed methodology has the capability to provide a powerful tool for faster and scalable simulations of polymerization reactions, enabling better prediction of product properties which could be used for optimizing reaction conditions in industrial applications.Article Citation - WoS: 3Citation - Scopus: 3Data Driven Modeling and Design of Cellulose Acetate-Polysulfone Blend Ultrafiltration Membranes Based on Artificial Neural Networks(Elsevier Ltd, 2025) Gungormus, E.This study aimed to develop and validate an Artificial Neural Networks (ANNs) model for the design and optimization of cellulose acetate-polysulfone blend ultrafiltration membranes, produced via the Non-Solvent Induced Phase Separation method. After some data science applications on a comprehensive dataset obtained from literature studies, the ultimate ANNs model exhibited superior predictive capabilities and effectively captured complex nonlinear relationships in the data. The optimum model configuration with a single hidden layer containing six neurons provided reliable predictions by avoiding overfitting and underfitting risks and significantly reducing error metrics. The model analyzed the effects of input variables on outputs, revealing that different stages of the membrane preparation process had varying impacts on performance metrics. This finding emphasized the importance of systematically optimizing the preparation process to enhance overall membrane performance. The model's predictions showed strong agreement with experimental data, further validating its accuracy. The optimum production conditions identified by the model offered significant improvements in membrane performance. Moreover, the model accelerated the membrane development process by reducing the required number of experimental trials and promoting efficient resource utilization. This approach contributed to both economic and environmental sustainability by reducing production costs and energy consumption. This study highlighted the significant potential of machine learning techniques for future innovations and advancements in this field by enabling precise, efficient, and sustainable membrane design and synthesis. © 2025 Elsevier Ltd.Article Citation - WoS: 1Tcgex: a Powerful Visual Interface for Exploring and Analyzing Cancer Gene Expression Data(Springernature, 2025) Kus, M. Emre; Sahin, Cagatay; Kilic, Emre; Askin, Arda; Ozgur, M. Mert; Karahanogullari, Gokhan; Ekiz, H. AtakanAnalyzing gene expression data from the Cancer Genome Atlas (TCGA) and similar repositories often requires advanced coding skills, creating a barrier for many researchers. To address this challenge, we developed The Cancer Genome Explorer (TCGEx), a user-friendly, web-based platform for conducting sophisticated analyses such as survival modeling, gene set enrichment analysis, unsupervised clustering, and linear regression-based machine learning. TCGEx provides access to preprocessed TCGA data and immune checkpoint inhibition studies while allowing integration of user-uploaded data sets. Using TCGEx, we explore molecular subsets of human melanoma and identify microRNAs associated with intratumoral immunity. These findings are validated with independent clinical trial data on immune checkpoint inhibitors for melanoma and other cancers. In addition, we identify cytokine genes that can be used to predict treatment responses to various immune checkpoint inhibitors prior to treatment. Built on the R/Shiny framework, TCGEx offers customizable features to adapt analyses for diverse research contexts and generate publication-ready visualizations. TCGEx is freely available at https://tcgex.iyte.edu.tr, providing an accessible tool to extract insights from cancer transcriptomics data.Article Citation - WoS: 3Citation - Scopus: 4Comparison of Conventional and Machine Learning Models for Kinetic Modelling of Biomethane Production From Pretreated Tomato Plant Residues(Elsevier, 2025) Fidan, Berrak; Bodur, Fatma-Gamze; Oztep, Gulsh; Gungoren-Madenoglu, Tuelay; Baba, Alper; Kabay, NalanTomato plant residues (Solanum lycopersicum L.) lack sustainable applications as abundant lignocellulosic biomass after harvest. These residues can be utilized as substrates in anaerobic digestion for biomethane production, generating energy and reducing waste. The purpose of this study was to investigate the sustainable utilization of tomato plant residues for biomethane production at varying conditions and to model biological kinetics. The study aimed to evaluate the effects of varying substrate/inoculum ratios, sulfuric acid pretreatment concentrations, and yeast (Saccharomyces cerevisiae) addition on biogas and biomethane yields under mesophilic conditions (37 degrees C). Maximum biogas and biomethane yields in the studied range were obtained when the substrate/inoculum ratio was 3 (g substrate/g inoculum), the sulfuric acid concentration used for residue pretreatment was 2 %v/v, and the substrate/yeast ratio was 10 (g substrate/g yeast). The yeast ratio of 10 increased the cumulative biogas and biomethane production by 96.5 and 128.9%, respectively. Conventional models (Modified Gompertz, Cone, First-order, Logistic) and Machine Learning models (Support Vector Machine and Neural Network) were compared for biological kinetics. Machine Learning models were also observed to give good fitting results similar to conventional models. Results suggest that Machine Learning models (RMSE: 2.5833-12.0500) are reliable methods like conventional kinetic models (RMSE: 2.1796-13.4880) for forecasting biomethane production in anaerobic digestion processes and Machine Learning models can be applied without needing prior understanding of biomethane production kinetics.