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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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Mobile Crowdsourcing Task Allocation Based on Dynamic Self-Attention GANs

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computers, Materials & Continua 2024年第4期79卷 607-622页

作者： Kai Wei Song Yu Qingxian Pan School of Computer and Control Engineering Yantai UniversityYantai264005China School of Computer and Information Science Southwest UniversityChongqing400715China

Crowdsourcing technology is widely recognized for its effectiveness in task scheduling and resource *** traditional methods for task allocation can help reduce costs and improve efficiency,they may encounter challenges when dealing with abnormal data flow nodes,leading to decreased allocation accuracy and *** address these issues,this study proposes a novel two-part invalid detection task allocation *** the first step,an anomaly detection model is developed using a dynamic self-attentive GAN to identify anomalous *** to the baseline method,the model achieves an approximately 4%increase in the F1 value on the public *** the second step of the framework,task allocation modeling is performed using a twopart graph matching *** phase introduces a P-queue KM algorithm that implements a more efficient optimization *** allocation efficiency is improved by approximately 23.83%compared to the baseline *** results confirm the effectiveness of the proposed framework in detecting abnormal data nodes,enhancing allocation precision,and achieving efficient allocation.

关键词： Mobile crowdsourcing task allocation anomaly detection GAN attention mechanisms

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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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An efficient schedulability analysis based on worst-case interference time for real-time systems

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science China(Information sciences) 2024年第9期67卷 88-104页

作者： Hongbiao LIU Mengfei YANG Lei QIAO Xi CHEN Jian GONG School of Computer Science and Technology Xidian University China Academy of Space Technology Beijing Institute of Control Engineering

Real-time systems are widely implemented in the Internet of Things(IoT) and safety-critical systems, both of which have generated enormous social value. Aiming at the classic schedulability analysis problem in real-time systems, we proposed an exact Boolean analysis based on interference(EBAI) for schedulability analysis in real-time systems. EBAI is based on worst-case interference time(WCIT), which considers both the release jitter and blocking time of the task. We improved the efficiency of the three existing tests and provided a comprehensive summary of related research results in the field. Abundant experiments were conducted to compare EBAI with other related results. Our evaluation showed that in certain cases, the runtime gain achieved using our analysis method may exceed 73% compared to the stateof-the-art schedulability test. Furthermore, the benefits obtained from our tests grew with the number of tasks, reaching a level suitable for practical application. EBAI is oriented to the five-tuple real-time task model with stronger expression ability and possesses a low runtime overhead. These characteristics make it applicable in various real-time systems such as spacecraft, autonomous vehicles, industrial robots, and traffic command systems.

关键词： five-tuple real-time task model real-time system spacecraft Internet of Things exact schedulability analysis worst-case interference time

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Privacy-preserving filtering, control and optimization for industrial cyber-physical systems

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science China(Information sciences) 2025年第4期68卷 267-283页

作者： Derui DING Qing-Long HAN Xiaohua GE Xian-Ming ZHANG Jun WANG Department of Control Science and Engineering University of Shanghai for Science and Technology School of Engineering Swinburne University of Technology Department of Computer Science City University of Hong Kong

Industrial cyber-physical systems closely integrate physical processes with cyberspace, enabling real-time exchange of various information about system dynamics, sensor outputs, and control decisions. The connection between cyberspace and physical processes results in the exposure of industrial production information to unprecedented security risks. It is imperative to develop suitable strategies to ensure cyber security while meeting basic performance *** the perspective of control engineering, this review presents the most up-to-date results for privacy-preserving filtering,control, and optimization in industrial cyber-physical systems. Fashionable privacy-preserving strategies and mainstream evaluation metrics are first presented in a systematic manner for performance evaluation and engineering *** discussion discloses the impact of typical filtering algorithms on filtering performance, specifically for privacy-preserving Kalman filtering. Then, the latest development of industrial control is systematically investigated from consensus control of multi-agent systems, platoon control of autonomous vehicles as well as hierarchical control of power systems. The focus thereafter is on the latest privacy-preserving optimization algorithms in the framework of consensus and their applications in distributed economic dispatch issues and energy management of networked power systems. In the end, several topics for potential future research are highlighted.

关键词： industrial cyber-physical systems privacy preservation distributed control distributed optimization power systems

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Progress on the Fault Diagnosis Approach for Lithium-ion Battery Systems:Advances,Challenges,and Prospects

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Protection and control of Modern Power Systems 2024年第5期9卷 16-41页

作者： Hanxiao Liu Luan Zhang Liwei Li School of Control Science and Engineering Shandong UniversityJinan 250061China School of Computer Science and Technology Shandong UniversityQingdao 266237China

Because of their advantages of high energy and power density,low self-discharge rate,and long lifespan,lithium-ion batteries(LIBs)have been widely used in many applications such as electric vehicles,energy storage systems,smart grids,***,lithium-ion battery systems(LIBSs)frequently malfunction because of complex working conditions,harsh operating environment,battery inconsistency,and inherent defects in battery ***,safety of LIBSs has become a prominent problem and has attracted wide ***,efficient and accurate fault diagnosis for LIBs is very *** paper provides a comprehensive review of the latest research progress in fault diagnosis for ***,the types of battery faults are comprehensively introduced and the characteristics of each fault are ***,the fault diagnosis methods are systematically elaborated,including model-based,data processing-based,machine learning-based and knowledge-based *** latest research is discussed and existing issues and challenges are presented,while future developments are also *** aim is to promote further researches into efficient and advanced fault diagnosis methods for more reliable and safer LIBs.

关键词： Battery management system battery safety fault diagnosis lithiumion battery system

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Predicting circRNA-Disease Associations by Using Multi-Biomolecular Networks Based on Variational Graph Auto-Encoder with Attention Mechanism

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Chinese Journal of Electronics 2024年第6期33卷 1526-1537页

作者： Jing YANG 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 Shenzhen Key Laboratory of Intelligent Bioinformatics Shenzhen Institute of Advanced Technology

CircRNA-disease association(CDA) can provide a new direction for the treatment of diseases. However,traditional biological experiment is time-consuming and expensive, this urges us to propose the reliable computational model to predict the associations between circRNAs and diseases. And there is existing more and more evidence indicates that the combination of multi-biomolecular information can improve the prediction accuracy. We propose a novel computational model for CDA prediction named MBCDA, we collect the multi-biomolecular information including circRNA, disease, miRNA and lncRNA based on 6 databases, and construct three heterogeneous network among them, then the multi-heads graph attention networks are applied to these three networks to extract the features of circRNAs and diseases from different views, the obtained features are put into variational graph auto-encoder(VGAE) network to learn the latent distributions of the nodes, a fully connected neural network is adopted to further process the output of VGAE and uses sigmoid function to obtain the predicted probabilities of circRNA-disease *** a result, MBCDA achieved the values of AUC and AUPR under 5-fold cross-validation of 0.893 and 0.887. MBCDA was applied to the analysis of the top-25 predicted associations between circRNAs and diseases, these experimental results show that our proposed MBCDA is a powerful computational model for CDA prediction.

关键词： Knowledge engineering Attention mechanisms Computational modeling Biological system modeling Predictive models Feature extraction Heterogeneous networks Topology Data mining Diseases

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Hybrid tri-memristor hyperchaotic map and application in Wasserstein Generative Adversarial Nets

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science China(Technological sciences) 2024年第6期67卷 1855-1865页

作者： GU Yang BAO Han YU XiHong HUA ZhongYun BAO BoCheng XU Quan School of Microelectronics and Control Engineering Changzhou UniversityChangzhou213159China School of Computer Science and Technology Harbin Institute of TechnologyShenzhen518055China

Inspired by basic circuit connection methods,memristors can also be utilized in the construction of complex discrete chaotic *** investigate the dynamical effects of hybrid memristors,we propose two hybrid tri-memristor hyperchaotic(HTMH)mapping structures based on the hybrid parallel/cascade and cascade/parallel operations,*** the HTMH mapping structure with hybrid parallel/cascade operation as an example,this map possesses a spatial invariant set whose stability is closely related to the initial states of the *** distributions and bifurcation behaviours dependent on the control parameters are explored with numerical ***,the memristor initial offset-boosting mechanism is theoretically demonstrated,and memristor initial offset-boosting behaviours are numerically *** results clarify that the HTMH map can exhibit hyperchaotic behaviours and extreme multistability with homogeneous coexisting infinite *** addition,an FPGA hardware platform is fabricated to implement the HTMH map and generate pseudorandom numbers(PRNs)with high ***,the generated PRNs can be applied in Wasserstein generative adversarial nets(WGANs)to enhance training stability and generation capability.

关键词： memristor hybrid tri-memristor map spatial invariant set hyperchaos extreme multistability generative adversarial nets

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Molecular Generation and Optimization of Molecular Properties Using a Transformer Model

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Big Data Mining and Analytics 2024年第1期7卷 142-155页

作者： Zhongyin Xu Xiujuan Lei Mei Ma Yi Pan School of Computer Science Shaanxi Normal UniversityXi'an 710119China Faculty of Computer Science and Control Engineering Shenzhen Institute of Advanced TechnologyChinese Academy of SciencesShenzhen 518055China

Generating novel molecules to satisfy specific properties is a challenging task in modern drug discovery,which requires the optimization of a specific objective based on satisfying chemical ***,we aim to optimize the properties of a specific molecule to satisfy the specific properties of the generated *** Matched Molecular Pairs(MMPs),which contain the source and target molecules,are used herein,and logD and solubility are selected as the optimization *** main innovative work lies in the calculation related to a specific transformer from the perspective of a matrix *** intervals and state changes are then used to encode logD and solubility for subsequent *** the experiments,we screen the data based on the proportion of heavy atoms to all atoms in the groups and select 12365,1503,and 1570 MMPs as the training,validation,and test sets,*** models are compared with the baseline models with respect to their abilities to generate molecules with specific *** show that the transformer model can accurately optimize the source molecules to satisfy specific properties.

关键词： molecular optimization transformer Matched Molecular Pairs(MMPs) logD solubility

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Expression Complementary Disentanglement Network for Facial Expression Recognition

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Chinese Journal of Electronics 2024年第3期33卷 742-752页

作者： Shanmin WANG Hui SHUAI Lei ZHU Qingshan LIU College of Computer Science and Technology Nanjing University of Aeronautics and Astronautics College of Computer and Software Nanjing University of Information Science and Technology School of Information and Control Nanjing University of Information Science and Technology

Disentangling facial expressions from other disturbing facial attributes in face images is an essential topic for facial expression *** methods only care about facial expression disentanglement(FED)itself,ignoring the negative effects of other facial *** to the annotations on limited facial attributes,it is difficult for existing FED solutions to disentangle all disturbance from the input *** solve this issue,we propose an expression complementary disentanglement network(ECDNet).ECDNet proposes to finish the FED task during a face reconstruction process,so as to address all facial attributes during *** from traditional reconstruction models,ECDNet reconstructs face images by progressively generating and combining facial appearance and matching *** designs the expression incentive(EIE) and expression inhibition(EIN) mechanisms,inducing the model to characterize the disentangled expression and complementary parts *** geometry and appearance,generated in the reconstructed process,are dealt with to represent facial expressions and complementary parts,*** combination of distinctive reconstruction model,EIE,and EIN mechanisms ensures the completeness and exactness of the FED *** results on RAF-DB,AffectNet,and CAER-S datasets have proven the effectiveness and superiority of ECDNet.

关键词： Facial expression recognition Facial expression disentanglement Face reconstruction Expression incentive Expression inhibition

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