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Drug–target interactions prediction based on similarity graph features extraction and deep learning

Neural Computing and Applications 2025年第6期37卷 4303-4322页

作者： Torkey, Hanaa El-Behery, Heba Attia, Abdel-Fattah El-Fishawy, Nawal Computer Science and Engineering Department Faculty of Electronic Engineering Menoufia University Menouf Egypt Department of Computer Science and Engineering Faculty of Engineering Kafrelsheikh University Kafrelsheikh Egypt Department of Computer Science College of Computer Engineering and Sciences Prince Sattam Bin Abdulaziz University Al-Kharj Saudi Arabia

Identifying drug–target interactions (DTIs) is a critical step in both drug repositioning. The labor-intensive, time-consuming, and costly nature of classic DTI laboratory studies makes it imperative to create efficient computer algorithms to forecast possible DTIs. However, current computational approaches that predict potential drug–target interactions (DTIs) suffer from some limitations, like finding the best similarity measures or negative samples, and thus require substantial performance improvement. This study proposes an integrated approach based on feature representation and deep learning to predict DTIs. We extract the relevant features of drugs and proteins from heterogeneous networks using graph mining techniques. The proposed approach constructs a heterogeneous graph from the known drug–protein interactions, protein–protein, and drug–drug similarities. Then applying two feature extraction techniques to extract the features, then utilizing these features in training a deep learning model to predict the potential DTIs. Also, a novel algorithm is proposed to find the negative samples based on the drug and protein similarity matrices. Four Benchmark datasets are used to evaluate the proposed approach. Our approach achieves the highest AUC (area under the ROC curve) across all datasets (0.98) with around 2% increases over the existing methods. Experimental results demonstrate that our proposed approach outperforms the baseline methods in predicting DTI, and our negative sample-identifying algorithm could be established as a competitive solution. © The Author(s), under exclusive licence to Springer-Verlag London Ltd., part of Springer Nature 2024.

关键词： Contrastive Learning

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Weighted rank aggregation based on ranker accuracies for feature selection

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Soft Computing 2025年第4期29卷 1981-2001页

作者： Abdolrazzagh-Nezhad, Majid Kherad, Mahdi Faculty of Engineering Department of Computer Engineering Bozorgmehr University of Qaenat Qaen Iran Department of Computer Science Faculty of Computer and Industrial Engineering Birjand University of Technology Birjand Iran Faculty of Engineering Department of Computer Engineering University of Qom Qom Iran

Rank aggregation is the combination of several ranked lists from a set of candidates to achieve a better ranking by combining information from different sources. In feature selection problem, due to the heterogeneity of methods, there are some base rankers (Filter-based methods) that are of diverse quality and usually the ground truth of ratings is not available. Existing rank aggregation methods that take the diverse quality of base rankers into account do not have any explicit approach for appropriate weighting, require prior assumptions, and suffers from high computational complexity. In this paper, to overcome these challenges, an efficient unsupervised method is introduced for estimating the base rankers’ qualities and aggregating the rankers based on the estimated weights. We first compute the ratio of disagreement between base rankers in ordering different element pairs and then estimate the accuracies in a way that to minimize the discrepancy between these computed ratios and their analytical counterparts. We use the weighted majority voting method for obtaining the aggregated results. To resolve the probable inconsistencies in the final aggregation, the result is formed as a graph, and a greedy algorithm is used to find an acyclic subgraph with the highest weigh. To demonstrate the performance of the proposed method, nine standard UCI datasets are used. The obtained results by the proposed method have higher values of classifier measures than the existing baseline Feature Selection methods and rank aggregation-based multi-filter methods in the most datasets. The experiments show that rank aggregation-based Feature Selection methods outperform individual methods. The proposed method also shows the weight of each Filter-based Feature Selection method, in which the MRMR method has a higher weight than other methods. © The Author(s), under exclusive licence to Springer-Verlag GmbH Germany, part of Springer Nature 2025.

关键词： Wiener filtering

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VoteDroid: a new ensemble voting classifier for malware detection based on fine-tuned deep learning models

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Multimedia Tools and Applications 2025年第12期84卷 10923-10944页

作者： Bakır, Halit Faculty of Engineering and Natural Sciences Department of Computer Engineering Sivas University of Science and Technology Sivas Turkey

In this work, VoteDroid a novel fine-tuned deep learning models-based ensemble voting classifier has been proposed for detecting malicious behavior in Android applications. To this end, we proposed adopting the random search optimization algorithm for deciding the structure of the models used as voter classifiers in the ensemble classifier. We specified the potential components that can be used in each model and left the random search algorithm taking a decision about the structure of the model including the number of each component that should be used and its location in the structure. This optimization method has been used to build three different deep learning models namely CNN-ANN, pure CNN, and pure ANN. After selecting the best structure for each DL model, the selected three models have been trained and tested using the constructed image dataset. Afterward, we suggested hybridizing the fine-tuned three deep-learning models to form one ensemble voting classifier with two different working modes namely MMR (Malware Minority Rule) and LMR (Label Majority Rule). To our knowledge, this is the first time that an ensemble classifier has been fine-tuned and hybridized in this way for malware detection. The results showed that the proposed models were promising, where the classification accuracy exceeded 97% in all experiments. © The Author(s) 2024.

关键词： Android malware

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Fuzzy clustering for electric field characterization and its application to thunderstorm interpretability

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Digital Communications and Networks 2025年第2期11卷 299-307页

作者： Xu Yang Hongyan Xing Xinyuan Ji Wei Xu Witold Pedrycz School of Electronics and Information Engineering Nanjing University of Information Science and Technology Department of Electrical and Computer Engineering University of Alberta Systems Research Institute Polish Academy of Sciences Department of Computer Engineering Faculty of Engineering and Natural Sciences Istinye University

Changes in the Atmospheric Electric Field Signal(AEFS) are highly correlated with weather changes, especially with thunderstorm activities. However, little attention has been paid to the ambiguous weather information implicit in AEFS changes. In this paper, a Fuzzy C-Means(FCM) clustering method is used for the first time to develop an innovative approach to characterize the weather attributes carried by AEFS. First, a time series dataset is created in the time domain using AEFS attributes. The AEFS-based weather is evaluated according to the time-series Membership Degree(MD) changes obtained by inputting this dataset into the FCM. Second, thunderstorm intensities are reflected by the change in distance from a thunderstorm cloud point charge to an AEF apparatus. Thus, a matching relationship is established between the normalized distance and the thunderstorm dominant MD in the space domain. Finally, the rationality and reliability of the proposed method are verified by combining radar charts and expert experience. The results confirm that this method accurately characterizes the weather attributes and changes in the AEFS, and a negative distance-MD correlation is obtained for the first time. The detection of thunderstorm activity by AEF from the perspective of fuzzy set technology provides a meaningful guidance for interpretable thunderstorms.

关键词： Atmospheric electric field (AEF) Thunderstorm Fuzzy C-means (FCM) Attribute

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A new bi-level deep human action representation structure based on the sequence of sub-actions

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Neural Computing and Applications 2025年第2期37卷 985-1008页

作者： Akhlaghian Tab, Fardin Ramezani, Mohsen Afshoon, Hadi Seyedi, Seyed Amjad Moradyani, Atefeh Department of Computer Engineering Faculty of Engineering University of Kurdistan Sanandaj Iran Department of Computer Science University of Kurdistan Sanandaj Iran

Human action recognition is applicable in different domains. Previously proposed methods cannot appropriately consider the sequence of sub-actions. Herein, we propose a semantical action model based on the sequence of sub-actions. A technique is used to segment actions on the time axis based on body movements via an energy diagram. After dividing actions into sub-actions, a novel bi-level deep structure is used to extract their features. Then, the sequence of sub-action features is modeled by a deep network to create the action model. As extracted sub-actions have fewer variations in execution manner, their representation is more stable, and modeling their sequence would be an efficient model. Experimental results on UCF-YouTube, UCF-Sport, and Human Motion DataBase (HMDB) datasets indicate the sustainable performance of this method. Overall, the accuracy of the proposed method is 0.972 on average, while the value for the second-best method is 0.925. © The Author(s), under exclusive licence to Springer-Verlag London Ltd., part of Springer Nature 2024.

关键词： Human form models

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Privacy-preserving explainable AI: a survey

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science China(Information sciences) 2025年第1期68卷 23-56页

作者： Thanh Tam NGUYEN Thanh Trung HUYNH Zhao REN Thanh Toan NGUYEN Phi Le NGUYEN Hongzhi YIN Quoc Viet Hung NGUYEN School of Information and Communication Technology Griffith University School of Computer and Communication Sciences Ecole Polytechnique Federale de Lausanne Faculty of Mathematics and Computer Science University of Bremen Faculty of Information Technology HUTECH University Department of Computer Science Hanoi University of Science and Technology School of Electrical Engineering and Computer Science The University of Queensland

As the adoption of explainable AI(XAI) continues to expand, the urgency to address its privacy implications intensifies. Despite a growing corpus of research in AI privacy and explainability, there is little attention on privacy-preserving model explanations. This article presents the first thorough survey about privacy attacks on model explanations and their countermeasures. Our contribution to this field comprises a thorough analysis of research papers with a connected taxonomy that facilitates the categorization of privacy attacks and countermeasures based on the targeted explanations. This work also includes an initial investigation into the causes of privacy leaks. Finally, we discuss unresolved issues and prospective research directions uncovered in our analysis. This survey aims to be a valuable resource for the research community and offers clear insights for those new to this domain. To support ongoing research, we have established an online resource repository, which will be continuously updated with new and relevant findings.

关键词： privacy-preserving explainable AI privacy attacks privacy defences PrivEx PPXAI

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A Fuzzy Multi-Objective Framework for Energy Optimization and Reliable Routing in Wireless Sensor Networks via Particle Swarm Optimization

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computers, Materials & Continua 2025年第5期83卷 2773-2792页

作者： Medhat A.Tawfeek Ibrahim Alrashdi Madallah Alruwaili Fatma M.Talaat Department of Computer Science College of Computer and Information SciencesJouf UniversitySakaka72341AljoufSaudi Arabia Department of Computer Engineering and Networks College of Computer and Information SciencesJouf UniversitySakaka72341AljoufSaudi Arabia Faculty of Artificial Intelligence Kafrelsheikh UniversityKafrelsheikh33516Egypt Faculty of Computer Science&Engineering New Mansoura UniversityGamasa35712Egypt

Wireless Sensor Networks(WSNs)are one of the best technologies of the 21st century and have seen tremendous growth over the past *** work has been put into its development in various aspects such as architectural attention,routing protocols,location exploration,time exploration,*** research aims to optimize routing protocols and address the challenges arising from conflicting objectives in WSN environments,such as balancing energy consumption,ensuring routing reliability,distributing network load,and selecting the shortest *** optimization techniques have shown success in achieving one or two objectives but struggle to achieve the right balance between multiple conflicting *** address this gap,this paper proposes an innovative approach that integrates Particle Swarm Optimization(PSO)with a fuzzy multi-objective *** proposed method uses fuzzy logic to effectively control multiple competing objectives to represent its major development beyond existing methods that only deal with one or two *** search efficiency is improved by particle swarm optimization(PSO)which overcomes the large computational requirements that serve as a major drawback of existing *** PSO algorithm is adapted for WSNs to optimize routing paths based on fuzzy multi-objective *** fuzzy logic framework uses predefined membership functions and rule-based reasoning to adjust routing *** adjustments influence PSO’s velocity updates,ensuring continuous adaptation under varying network *** proposed multi-objective PSO-fuzzy model is evaluated using NS-3 *** results show that the proposed model is capable of improving the network lifetime by 15.2%–22.4%,increasing the stabilization time by 18.7%–25.5%,and increasing the residual energy by 8.9%–16.2% compared to the state-of-the-art *** proposed model also achieves a 15%–24% reduction in load variance,demonstrating balanced routing and extended net

关键词： Wireless sensor networks particle swarm optimization fuzzy multi-objective framework routing stability

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Application of human activity/action recognition: a review

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Multimedia Tools and Applications 2025年 1-30页

作者： sedaghati, Nazanin ardebili, Sondos Ghaffari, Ali Department of Computer Engineering Tabriz Branch Islamic Azad University Tabriz Iran Department of Computer Engineering Faculty of Engineering and Natural Science Istinye University Istanbul Turkey Department of Computer Science Khazar University Baku Azerbaijan

Human activity recognition is a crucial domain in computer science and artificial intelligence that involves the Detection, Classification, and Prediction of human activities using sensor data such as accelerometers, gyroscopes, etc. This field utilizes time-series signals from sensors present in smartphones and wearable devices to extract human activities. Various types of sensors, including inertial HAR sensors, physiological sensors, location sensors, cameras, and temporal sensors, are employed in diverse environments within this domain. It finds valuable applications in various areas such as smart homes, elderly care, the Internet of Things (IoT), personal care, social sciences, rehabilitation engineering, fitness, and more. With the advancement of computational power, deep learning algorithms have been recognized as effective and efficient methods for detecting and solving well-established HAR issues. In this research, a review of various deep learning algorithms is presented with a focus on distinguishing between two key aspects: activity and action. Action refers to specific, short-term movements and behaviors, while activity refers to a set of related, continuous affairs over time. The reviewed articles are categorized based on the type of algorithms and applications, specifically sensor-based and vision-based. The total number of reviewed articles in this research is 80 sources, categorized into 42 references. By offering a detailed classification of relevant articles, this comprehensive review delves into the analysis and scrutiny of the scientific community in the HAR domain using deep learning algorithms. It serves as a valuable guide for researchers and enthusiasts to gain a better understanding of the advancements and challenges within this field. © The Author(s) 2025.

关键词： Human Action Detection Human Activity Recognition (HAR) Human–computer Interaction (HCI) Sensors Smartphones

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Enhancing the efficiency of lung cancer screening: predictive models utilizing deep learning from CT scans

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Neural Computing and Applications 2025年 1-19页

作者： Tawfeek, Medhat A. Alrashdi, Ibrahim Alruwaili, Madallah Shaban, Warda M. Talaat, Fatma M. Department of Computer Science Faculty of Computers and Information Menoufia University Shebin Elkom32511 Egypt Department of Computer Science College of Computer and Information Sciences Jouf University Sakakah Saudi Arabia Department of Computer Engineering and Networks College of Computer and Information Sciences Jouf University Sakakah Saudi Arabia Department of Communication and Electronics Engineering Nile Higher Institute for Engineering and Technology Mansoura Egypt Faculty of Artificial Intelligence Kafrelsheikh University Kafrelsheikh Egypt Faculty of Computer Science and Engineering New Mansoura University Gamasa35712 Egypt

Lung cancer is the most lethal form of cancer. This paper introduces a novel framework to discern and classify pulmonary disorders such as pneumonia, tuberculosis, and lung cancer by analyzing conventional X-ray and CT scan images called lung cancer risk prediction (LCRP) model. LCRP has four modules, namely data collection and preprocessing, data augmentation module, image segmentation module, and prediction module. Actually, LCRP employs three deep learning models;sequential model, functional model, and transfer model on publicly available training datasets. Convolutional neural networks (CNNs) have emerged as a highly effective field in machine learning, particularly for image datasets in the field of biomedical applications. The primary goal is to validate these models by comparing their performance with other models in order to determine their effectiveness in addressing challenging datasets. Our research has revealed a noteworthy enhancement in the efficiency of binary and multi-class classification using mask R-CNN image segmentation. During the model training process, a combination of Adam and stochastic gradient descent dual optimizers has been used to improve performance. LCRP have outperformed current pre-trained models by minimizing training parameters, computational costs, and overhead. It introduces 98.5% accuracy, 88.7% specificity, 89% sensitivity, 89.2% precision, and 89.09% F-measure. © The Author(s), under exclusive licence to Springer-Verlag London Ltd., part of Springer Nature 2025.

关键词： Lung cancer

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Proposing a digital twin-based sustainable water governance system for rural Indian villages

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International Journal of Information Technology (Singapore) 2025年第3期17卷 1777-1783页

作者： Singh, Dineshkumar Sharma, Vishnu Department of Computer Science and Engineering Faculty of Computer Science & Engineering (FCE) Poornima University Jaipur India Department of Computer Science and Application Faculty of Computer Science & Engineering (FCE) Poornima University Jaipur India

A sustainably governed water-ecosystem at village-level is crucial for the community's well-being. It requires understanding natures’ limits to store and yield water and balance it with the stakeholders’ needs, in the context of population growth, climate change, and unsustainable agricultural practices. Maharashtra villages like Randullabad and Karanjkhop are impacted by limited groundwater availability due to the geological structure of the Deccan Traps basaltic rock formation and are recharged by the most rainfall during the monsoon season. Traditional water management practices are inadequate, with old wells causing conflicts among villagers due to fluctuating water levels. In order to achieve a sustainable water system for rural Indian villages, this paper proposes a Digital Twin-Based Water Governance System (DToWGS) with the aim of balancing nature's boundaries with stakeholders' interests to provide real-time water insights, encourage community engagement, transparency in water allocation and decision-making, and promote sustainable practices. These measured indicators can potentially link local governance outcomes to global goals like Viksit Bharat 2047 and UN Sustainable Development Goal 6 (SDG 6). © Bharati Vidyapeeth's Institute of computer Applications and Management 2025.

关键词： Digital twin Empathy map Remote sensing SDG6 Stakeholders Village water environment

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