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An Encoding-Decoding Framework Based on CNN for circ RNA-RBP Binding Sites Prediction

Chinese Journal of Electronics 2024年第1期33卷 256-263页

作者： Yajing GUO Xiujuan LEI Yi PAN School of Computer Science Shaanxi Normal University Faculty of Computer Science and Control Engineering Shenzhen Institute of Advanced TechnologyChinese Academy of Sciences Department of Computer Science Georgia State University

Predicting RNA binding protein(RBP) binding sites on circular RNAs(circ RNAs) is a fundamental step to understand their interaction mechanism. Numerous computational methods are developed to solve this problem, but they cannot fully learn the features. Therefore, we propose circ-CNNED, a convolutional neural network(CNN)-based encoding and decoding framework. We first adopt two encoding methods to obtain two original matrices. We preprocess them using CNN before fusion. To capture the feature dependencies, we utilize temporal convolutional network(TCN) and CNN to construct encoding and decoding blocks, respectively. Then we introduce global expectation pooling to learn latent information and enhance the robustness of circ-CNNED. We perform circ-CNNED across 37 datasets to evaluate its effect. The comparison and ablation experiments demonstrate that our method is superior. In addition, motif enrichment analysis on four datasets helps us to explore the reason for performance improvement of circ-CNNED.

关键词： Circular RNAs (circRNAs) RNA binding proteins Convolutional neural network Temporal convolutional network Encoder-decoder network

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ELCD-NSC2: a novel early lung cancer detection and non-small cell classification framework

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Neural Computing and Applications 2024年第24期36卷 15149-15164页

作者： Helaly, Hadeer A. Badawy, Mahmoud El-Gendy, Eman M. Haikal, Amira Y. Electrical Engineering Department Faculty of Engineering Damietta University Damietta Egypt Computers and Control Systems Engineering Department Faculty of Engineering Mansoura University Mansoura Egypt Department of Computer Science and Informatics Taibah University Medina Saudi Arabia

The survival rate of lung cancer relies significantly on how far the disease has spread when it is detected, how it reacts to the treatment, the patient’s overall health, and other factors. Therefore, the earlier the lung cancer diagnosis, the higher the survival rate. For radiologists, recognizing malignant lung nodules from computed tomography (CT) scans is a challenging and time-consuming process. As a result, computer-aided diagnosis (CAD) systems have been suggested to alleviate these burdens. Deep-learning approaches have demonstrated remarkable results in recent years, surpassing traditional methods in different fields. Researchers are currently experimenting with several deep-learning strategies to increase the effectiveness of CAD systems in lung cancer detection with CT. This work proposes a deep-learning framework for detecting and diagnosing lung cancer. The proposed framework used recent deep-learning techniques in all its layers. The autoencoder technique structure is tuned and used in the preprocessing stage to denoise and reconstruct the medical lung cancer dataset. Besides, it depends on the transfer learning pre-trained models to make multi-classification among different lung cancer cases such as benign, adenocarcinoma, and squamous cell carcinoma. The proposed model provides high performance while recognizing and differentiating between two types of datasets, including biopsy and CT scans. The Cancer Imaging Archive and Kaggle datasets are utilized to train and test the proposed model. The empirical results show that the proposed framework performs well according to various performance metrics. According to accuracy, precision, recall, F1-score, and AUC metrics, it achieves 99.60, 99.61, 99.62, 99.70, and 99.75%, respectively. Also, it depicts 0.0028, 0.0026, and 0.0507 in mean absolute error, mean squared error, and root mean square error metrics. Furthermore, it helps physicians effectively diagnose lung cancer in its early stages and allows spe

关键词： Image classification

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Drug-Target Interactions Prediction Based on Signed Heterogeneous Graph Neural Networks

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Chinese Journal of Electronics 2024年第1期33卷 231-244页

作者： Ming CHEN Yajian JIANG Xiujuan LEI Yi PAN Chunyan JI Wei JIANG College of Information Science and Engineering Hunan Normal University School of Computer Science Shaanxi Normal University Faculty of Computer Science and Control Engineering Shenzhen Institute of Advanced TechnologyChinese Academy of Sciences Computer Science Department BNU-HKBU United International College

Drug-target interactions(DTIs) prediction plays an important role in the process of drug *** computational methods treat it as a binary prediction problem, determining whether there are connections between drugs and targets while ignoring relational types information. Considering the positive or negative effects of DTIs will facilitate the study on comprehensive mechanisms of multiple drugs on a common target, in this work, we model DTIs on signed heterogeneous networks, through categorizing interaction patterns of DTIs and additionally extracting interactions within drug pairs and target protein pairs. We propose signed heterogeneous graph neural networks(SHGNNs), further put forward an end-to-end framework for signed DTIs prediction, called SHGNN-DTI,which not only adapts to signed bipartite networks, but also could naturally incorporate auxiliary information from drug-drug interactions(DDIs) and protein-protein interactions(PPIs). For the framework, we solve the message passing and aggregation problem on signed DTI networks, and consider different training modes on the whole networks consisting of DTIs, DDIs and PPIs. Experiments are conducted on two datasets extracted from Drug Bank and related databases, under different settings of initial inputs, embedding dimensions and training modes. The prediction results show excellent performance in terms of metric indicators, and the feasibility is further verified by the case study with two drugs on breast cancer.

关键词： Drug-target interactions Signed heterogeneous network Link sign prediction Graph neural networks

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DeepLeaf: an optimized deep learning approach for automated recognition of grapevine leaf diseases

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Neural Computing and Applications 2025年第15期37卷 8799-8823页

作者： Talaat, Fatma M. Shams, Mahmoud Y. Gamel, Samah A. ZainEldin, Hanaa Faculty of Artificial Intelligence Kafrelsheikh University Kafrelsheikh33516 Egypt Faculty of Computer Science and Engineering New Mansoura University Gamasa35712 Egypt Faculty of Engineering Horus University Damietta Egypt Computers and Control Systems Engineering Department Faculty of Engineering Mansoura University Mansoura Egypt

Plant diseases can cause severe losses in agricultural production, impacting food security and safety. Early detection of plant diseases is crucial to minimize crop damage and ensure agricultural sustainability. Manual monitoring is often impractical due to the complexity and time involved, making automated disease recognition essential. This study presents a new Plant Disease Detection Algorithm (PDDA) called DeepLeaf focused on identifying four common grapevine diseases: leaf blight, black rot, stable, and black measles. The PDDA integrates three key modules: an Image Preprocessing Module, a Feature Extraction Module, and an Optimized Convolutional Neural Network (OCNN)-based Classification Module. The OCNN forms the core of the classification system, with its hyperparameters fine-tuned using fuzzy optimization to enhance performance. Preprocessing techniques are applied to analyze diseased leaves, and a logistic regression algorithm is used to downsample the features for better analysis. The CNN is trained on images from the Plant Village dataset, allowing it to detect and classify grapevine leaf diseases accurately. The proposed model's efficiency in the automated diagnosis of grapevine diseases is demonstrated by its remarkable 99.7% accuracy rate. This high accuracy indicates that the PDDA may help with more effective and scalable plant disease monitoring, which will ultimately allow better agricultural practices. © The Author(s) 2025.

关键词： CNN Detection of leaf disease Extracting features Plant disease

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Comprehensive multimodal approach for Parkinson’s disease classification using artificial intelligence: insights and model explainability

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Soft Computing 2025年第3期29卷 1845-1877页

作者： Balaha, Hossam Magdy Hassan, Asmaa El-Sayed Ahmed, Rawan Ayman Balaha, Magdy Hassan Bioengineering Department J.B. Speed School of Engineering University of Louisville LouisvilleKY United States Computer Science and Control Systems Engineering Department Faculty of Engineering Mansoura University Mansoura Egypt Mathematics and Engineering Physics Department Faculty of Engineering Mansoura University Mansoura Egypt Department of Obstetrics and Gynecology Faculty of Medicine Tanta University Tanta Egypt

Parkinson’s disease (PD) is a debilitating neurodegenerative disorder affecting millions worldwide. Early detection is vital for effective management, yet remains challenging. In this study, we investigated four distinct datasets for PD detection. Through comprehensive experimentation employing ensemble methods and feature selection, we achieved high classification accuracies across the datasets. For the Oxford Parkinson’s Disease Detection Dataset, an accuracy of 95.67%, precision of 97.59%, recall of 84.5%, specificity of 99.32%, and F1-score of 90.57% were achieved. For the Alzheimer Parkinson Diseases 3 Class Dataset, the "Stacking" approach surpasses individual models, reaching an accuracy of 99.85%, precision of 99.81%, recall of 99.81%, specificity of 99.86%, and F1 of 99.81%. For the NewHandPD dataset, Regarding the Spiral category, The "Base-P32-384" model surpasses others with an accuracy of 97.35%, precision of 96.50%, recall of 98.57%, and F1-score of 97.53%. The collective "Stacking" approach proves highly effective regarding the Circle category, achieving 100% across all performance metrics. Regarding the Meander category, the "Base-P16-224" model achieves an accuracy of 97.35%, precision of 99.26%, recall of 95.71%, specificity of 99.19%, and F1 of 97.45%. The Mobile Device Voice Recordings at King’s College London (MDVR-KCL) dataset contains two datasets. Regarding the "SpontaneousDialogue" dataset, accuracy, BAC, precision, recall, specificity, and F1-score were computed, resulting in values of 94.03%, 92.83%, 90.78%, 100.0%, and 85.67%, respectively. Regarding the "ReadText" dataset, accuracy, BAC, precision, recall, specificity, and F1-score were computed, resulting in values of 91.89%, 90.62%, 87.5%, 100.0%, and 81.25%, respectively. Our findings highlight the efficacy of leveraging diverse data sources and advanced machine learning techniques to enhance PD detection accuracy. © The Author(s), under exclusive licence to Springer-Verlag GmbH Germa

关键词： Neurodegenerative diseases

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Time-Varying Formation Tracking control of Heterogeneous Multi-Agent systems With Intermittent Communications and Directed Switching Networks

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IEEE/CAA Journal of Automatica Sinica 2025年第1期12卷 294-296页

作者： Yuhan Wang Zhuping Wang Hao Zhang Huaicheng Yan the Shanghai Research Institute for Intelligent Autonomous Systems Tongji University the National Key Laboratory of Autonomous Intelligent Unmanned Systems the Frontiers Science Center for Intelligent Autonomous System of Ministry of Education the College of Electronic and Information Engineering the Department of Control Science and Engineering Tongji University the Key Laboratory of Advanced Control and Optimization for Chemical Processes of Ministry of Education the School of Information Science and Engineering East China University of Science and Technology

Dear Editor,This letter is concerned with the problem of time-varying formation tracking for heterogeneous multi-agent systems(MASs) under directed switching networks. For this purpose, our first step is to present so... 详细信息

关键词： Switches Topology Observers Formation control Event detection Switched systems Multi-agent systems control theory Autonomous systems Stability

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Effect of Graphite Addition on Microstructure, Mechanical Properties and Thermal Properties of Injection Molded AZ91D Alloy+1

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Materials Transactions 2024年第4期65卷 374-380页

作者： Hideshima, Yasutoshi Maeda, Fumiya Fukuta, Tadao Ozaki, Koichi Course of Advanced Systems Engineering Graduate School of Computer Science and Systems Engineering Okayama Prefectural University Soja719-1197 Japan Process Technology Development Department Technology Development Division Seiko Epson Corp. Suwa399-0211 Japan Department of Systems Engineering Faculty of Computer Science and Systems Engineering Okayama Prefectural University Soja719-1197 Japan

Magnesium chips were coated with a high concentration of graphite using a binder and were used as the raw material for injection molding. The microstructure of the magnesium injection-molded product with added graphite exhibited a dispersion of needle-like graphite particles. No significant voids were observed at the interfaces between the graphite and the matrix. The addition of more than 0.5 mass% graphite decreased the proof stress and tensile strength of the injection-molded products. The Young’s modulus of the graphite-added products tended to decrease with an increase in the graphite content, which is consistent with the lower limit of the rule of mixtures. The thermal conductivity of the 6.9 mass% graphite-added product increased compared with that of the AZ91D magnesium alloy and the coefficient of linear thermal expansion decreased. Both values are within a range that satisfied the rules of mixtures. © 2024 The Japan Institute of Metals and Materials.

关键词： Thermal expansion

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A NOTE ON THE QUALITATIVE BEHAVIOUR OF AN ODE MODEL RELATED TO ENDOTOXIN TOLERANCE

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UPB Scientific Bulletin, Series A: Applied Mathematics and Physics 2024年第4期86卷 127-130页

作者： Olteanu, Mircea Ştefan, Radu Department of Mathematical Methods and Models Faculty of Applied Sciences University "Politehnica" of Bucharest Romania Department of Automatic Control and Systems Engineering Faculty of Automatic Control and Computer Science University "Politehnica" of Bucharest Romania

关键词： Differential equations

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AutYOLO-ATT: an attention-based YOLOv8 algorithm for early autism diagnosis through facial expression recognition

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Neural Computing and Applications 2024年第27期36卷 17199-17219页

作者： Hosney, Reham Talaat, Fatma M. El-Gendy, Eman M. Saafan, Mahmoud M. Computers and Control Systems Engineering Department Faculty of Engineering Mansoura University Mansoura Egypt Faculty of Artificial Intelligence Kafrelsheikh University Kafrelsheikh33516 Egypt Faculty of Computer Science and Engineering New Mansoura University Gamasa35712 Egypt Nile Higher Institute for Engineering and Technology Mansoura Egypt

Autism Spectrum Disorder (ASD) is a developmental condition resulting from abnormalities in brain structure and function, which can manifest as communication and social interaction difficulties. Conventional methods for diagnosing ASD may not be effective in the early stages of the disorder. Hence, early diagnosis is crucial to improving the patient's overall health and well-being. One alternative and effective method for early autism diagnosis is facial expression recognition since autistic children typically exhibit distinct facial expressions that can aid in distinguishing them from other children. This paper provides a deep convolutional neural network (DCNN)-based real-time emotion recognition system for autistic kids. The proposed system is designed to identify six facial emotions, including surprise, delight, sadness, fear, joy, and natural, and to assist medical professionals and families in recognizing facial expressions in autistic children for early diagnosis and intervention. In this study, an attention-based YOLOv8 (AutYOLO-ATT) algorithm for facial expression recognition is proposed, which enhances the YOLOv8 model's performance by integrating an attention mechanism. The proposed method (AutYOLO-ATT) outperforms all other classifiers in all metrics, achieving a precision of 93.97%, recall of 97.5%, F1-score of 92.99%, and accuracy of 97.2%. These results highlight the potential of the proposed method for real-world applications, particularly in fields where high accuracy is essential. © The Author(s) 2024.

关键词： Diagnosis

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Collision avoidance and routing based on location access (CARLA) of mobile robots

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Neural Computing and Applications 2025年第9期37卷 6401-6430页

作者： ElSayyad, Shimaa Ezzat Saleh, Ahmed I. Ali, Hesham A. Saraya, M.S. Rabie, Asmaa H. Abdelsalam, Mohamed M. Computers Engineering Department MISR Higher Institute for Engineering and Technology Mansoura Round Road Mansoura City35516 Egypt Computers and Control Systems Engineering Department Faculty of Engineering Mansoura University Mansoura35516 Egypt Dean of Faculty of Artificial Intelligence Delta University for Science and Technology Gamasa Mansoura Egypt Faculty of Engineering Mansoura National University Gamasa Mansoura Egypt

The paper introduces a new path-planning robotic system methodology called Collision Avoidance and Routing based on Location Access (CARLA) for use in critical environments such as hospitals and crises where quick action and saving human lives are vital. The main focus of our framework is on accuracy and fast responses, such as delivering tools or items in a specific area while avoiding collisions with other robots and obstacles. CARLA is designed to provide quick responses during emergencies, unlike most existing algorithms that are integrated into site control units or distributed among mobile robots on-site. By being loaded onto a remote server node rather than individual robots, CARLA helps to conserve the robots' capabilities, hardware resources, and power consumption. Additionally, our system utilizes cloud computing and Fog servers technology to improve data transmission times between the cloud and smart devices, especially for applications with strict timing requirements like emergency response. The Fog platform is also leveraged to enhance on-site access to real-time interaction and location-based services by bringing processing power closer to the robots from far-off Cloud servers. CARLA has various applications, such as in factories and warehouses, where mobile robots need to be selected and directed by a central control system remotely. The proposed framework consists of three main modules: Robot Knowledge Module, Robot Selection Module, and Route Reservation Module, which will all be discussed in detail in this paper. The results of simulations using this framework show that the robots have improved flexibility and efficiency in terms of computing paths and successfully fulfiling requests without colliding, compared to traditional methods used in similar scenarios. © The Author(s) 2025.

关键词： Mobile robots

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