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11th International Conference on computer and Communications Management, ICCCM 2023

作者： Lu, Xiqin Funabiki, Nobuo Ueda, Kiyoshi Kao, Wen-Chung Department of Information and Communication Systems Distributed System Design Lab. Okayama University Okayama Japan Department of Computer Science Control Software Lab. Nihon University Koriyama Japan Department of Electrical Engineering National Taiwan Normal University Taipei Taiwan

ISBN: (纸本)9798400707735

Network programming is the act of writing computer codes for communications between programs or processes in different computers across networks. It is crucial for applications and services using networks, including e-commerce, gaming, and social media. However, university courses of educating it are very limited. As a result, it has become important to develop and offer IT tools to support self-studies of network programming by novices. In this paper, we present a study of two types of introductory exercise problems, namely, Grammar-concept Understanding Problem (GUP) and Comment Insertion Problem (CIP), for self-studies of five basic network protocols of TCP/IP, ARP, SMTP, POP3, and SSH with Python. A GUP instance requests to answer the keyword such as a library function in the given source code that corresponds to the grammar concept described in the question. A CIP instance requests to insert the comment at each blank of the code. String matching is adopted to mark any answer at the browser-based answer interface. Through solving them, it is expected to understand the meaning of important words and the code structure for network programming. As preliminary evaluations, we generated six GUP and CIP instances respectively, and assigned them to 10 students in Okayama University, Japan. The results confirmed that the proposal is proper for novices to learn network programming with Python. © 2023 ACM.

关键词： Python

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Isoform Function Prediction Based on Heterogeneous Graph Attention Networks

Isoform Function Prediction Based on Heterogeneous Graph Att...

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2023 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2023

作者： Guo, Kuo Li, Yifan Chen, Hao Shen, Hong-Bin Yang, Yang Shanghai Jiao Tong University Key Lab. of Shanghai Education Commission for Intelligent Interaction and Cognitive Engineering Department of Computer Science and Engineering Shanghai200240 China Shanghai Jiao Tong University Key Laboratory of System Control and Information Processing Ministry of Education of China Institute of Image Processing and Pattern Recognition Shanghai200240 China Carnegie Mellon University School of Computer Science Computational Biology Department PittsburghPA15213 United States

ISBN: (纸本)9798350337488

Isoforms refer to different mRNA molecules transcribed from the same gene, which can be translated into proteins with varying structures and functions. Predicting the functions of isoforms is an essential topic in bioinformatics as it can provide valuable insights into the intricate mechanisms of gene regulation and biological processes. Conventionally, gene function lab.ls are standardized in Gene Ontology (GO) terms. However, traditional methods for predicting isoform function are largely limited by the absence of isoform-specific lab.ls, sparse annotations, and the vast number of GO terms. To address these issues, we propose HANIso, a deep learning-based method for isoform function prediction. HANIso leverages a pretrained protein language model to extract features from protein sequences. It also integrates heterogeneous information, such as isoform sequence features, GO annotations, and isoform interaction data, using a Heterogeneous Graph Attention Network (HAN). This allows the model to learn the importance of different sources of information and their semantic relationships through the attention mechanism. Our method can predict function lab.ls at both the gene level and isoform level. We conduct experiments on two species datasets, and the results demonstrate that our method outperforms existing methods on both AUROC and AUPRC. HANIso has the potential to overcome the limitations of traditional methods and provide a more accurate and comprehensive understanding of isoform function. © 2023 IEEE.

关键词： alternative splicing gene ontology heterogeneous graph attention network isoform function prediction protein language model

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SliceProp: A Slice-Wise Bidirectional Propagation Model for Interactive 3D Medical Image Segmentation 1

SliceProp: A Slice-Wise Bidirectional Propagation Model for ...

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1st IEEE International Conference on Medical Artificial Intelligence, MedAI 2023

作者： Xu, Xin Lu, Wenjing Lei, Jiahao Qiu, Peng Shen, Hong-Bin Yang, Yang Shanghai Jiao Tong University Key Lab. of Shanghai Education Commission for Intelligent Interaction and Cognitive Engineering Department of Computer Science and Engineering Shanghai200240 China Shanghai Ninth People's Hospital Shanghai Jiao Tong University School of Medicine Department of Vascular Surgery China Shanghai Jiao Tong University Institute of Image Processing and Pattern Recognition Key Laboratory of System Control and Information Processing Ministry of Education of China Shanghai200240 China

ISBN: (纸本)9798350358780

Interactive medical image segmentation methods have become increasingly popular in recent years. These methods combine manual lab.ling and automatic segmentation, reducing the workload of annotation while maintaining high accuracy. However, most current interactive segmentation frameworks are limited to 2D image data, and are not suitable for 3D image data due to the large size and high complexity of 3D data, as well as the challenges posed by information asymmetry and sparse annotation. In this paper, we propose SliceProp, an interactive segmentation framework that implements slice-wise lab.l Bidirectional Propagation (LBP) for 3D medical image segmentation. SliceProp extends the interactive 2D image segmentation algorithm to 3D image segmentation, and can handle 3D data with large size and high complexity. Moreover, equipped with a Backtracking Feedback Check (BFC) module, SliceProp effectively addresses the issues of information asymmetry and spatial sparse annotation in 3D medical image segmentation. Additionally, we adopt an uncertainty-based criterion to pri-oritize the slices to be refined interactively, which enhances the efficiency of the interaction process by enabling the model to focus on the regions with the most unreliable predictions. SliceProp is evaluated on two datasets and achieves promising results compared to state-of-the-art methods. © 2023 IEEE.

关键词： Medical imaging

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Model Predictive control with Reach-avoid Analysis

arXiv

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arXiv 2023年

作者： Ren, Dejin Lu, Wanli Lv, Jidong Zhang, Lijun Xue, Bai State Key Lab. of Computer Science Institute of Software CAS Beijing China University of Chinese Academy of Sciences Beijing China National Engineering Research Center of Rail Transportation Operation and Control System Beijing Jiaotong University Beijing China

In this paper we investigate the optimal controller synthesis problem, so that the system under the controller can reach a specified target set while satisfying given constraints. Existing model predictive control (MPC) methods learn from a set of discrete states visited by previous (sub-)optimized trajectories and thus result in computationally expensive mixed-integer nonlinear optimization. In this paper a novel MPC method is proposed based on reach-avoid analysis to solve the controller synthesis problem iteratively. The reach-avoid analysis is concerned with computing a reach-avoid set which is a set of initial states such that the system can reach the target set successfully. It not only provides terminal constraints, which ensure feasibility of MPC, but also expands discrete states in existing methods into a continuous set (i.e., reach-avoid sets) and thus leads to nonlinear optimization which is more computationally tractable online due to the absence of integer variables. Finally, we evaluate the proposed method and make comparisons with state-of-the-art ones based on several examples. Copyright © 2023, The Authors. All rights reserved.

关键词： Model predictive control

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Robust Beamforming Based on Covariance Matrix Reconstruction and ADMM

Robust Beamforming Based on Covariance Matrix Reconstruction...

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2021 CIE International Conference on Radar, Radar 2021

作者： Gong, Pengcheng Wang, Zhaobin Xu, Kaiyan School of Information and Communication Engineering University of Electronic Science and Technology of China Chengdu611731 China School of Computer Science and Engineering Wuhan Institute of Technology Wuhan430205 China Hubei University of Technology Hubei Key Lab. for High-efficiency Utiliz. of Solar Ener. and Oper. Control of Energy Storage System Wuhan430068 China

ISBN: (纸本)9781665498142

Considering at the issue that the performance of the traditional beamforming algorithm will decrease sharply when the disturbance occurs at the disturbed position and the steering vector mismatch occurs, a new robust beamforming method based on covariance matrix reconstruction and Alternating Direction Method of Multipliers (ADMM) is proposed. Firstly, based on the maximum output power criterion of beamformers, an optimization model is designed to solve the optimal steering vector. Then, the covariance matrix is reconstructed by using the defined interference range to widen the nullity and enhance the anti-motion interference ability of the system. Then, for the quadratic inequality constraint problem of the steering vector, this paper uses ADMM to solve the model iteratively, and obtains the specific solution of the steering vector in each iteration. In addition, the complexity of the algorithm is also analyzed. The experimental results show that, compared with the existing beamforming algorithms, the proposed method Widen the width of zero notch in the interference area, improves the anti-interference performance of the beam, and can well correct the mismatched steering vector. © 2021 IEEE.

关键词： Alternating Direction Method of Multipliers Beamforming Covariance matrix reconstruction Null widening Quadratic constraint

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A Many-Objective Evolutionary Algorithm Assisted by Ideal Hyperplane

SSRN

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SSRN 2022年

作者： Zhang, Zhixia Wen, Jie Wang, Hui Cai, Xingjuan Cui, Zhihua Zhang, Wensheng School of Computer Science and Technology Taiyuan University of Science and Technology China School of Information Engineering Nanchang Institute of Technology Nanchang330099 China State Key Laboratory of Intelligent Control and Management of Complex System Institute of Automation Chinese Academy of Sciences China State Key Lab. for Novel Software Technology Nanjing University China

In many-objective optimization problems (MaOPs), it is a difficult task for evolutionary algorithms to balance convergence and diversity while rapidly converging to the Pareto front. As the number of objectives increases, the difficulty of evolutionary algorithms increases with individual selection pressure. To address above problems, we propose a many-objective evolution algorithm assisted by an ideal hyperplane (MaOEA-IH). Firstly, the ideal hyperplane as a reference surface to guide the individual to search the Pareto front, which is established from the extremum of each dimension of the objective space. Secondly, a parallel p -norm mating selection strategy is proposed to improve convergence. In addition, two factors are considered in this strategy: 1) different p -norm are used to measure different spatial scales;2) individual selection uncertainty is defined by incorporating a probabilistic perturbation mechanism. Thirdly, the improved shift-based density estimation strategy is used as the evaluation criterion for environmental selection to improve the convergence and diversity of solution sets and enhance selection pressure. To verify the effectiveness of the proposed algorithm, MAOEA-IH is compared with seven excellent algorithms in three benchmark sets (DTLZ, WFG and MaF). The results show that the proposed MAOEA-IH is highly competitive in solving MaOPs. © 2022, The Authors. All rights reserved.

关键词： Geometry

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NiuEM: A Nested-iterative Unsupervised Learning Model for Single-particle Cryo-EM Image Processing

NiuEM: A Nested-iterative Unsupervised Learning Model for Si...

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2020 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2020

作者： Hu, Rui Cai, Jiaming Zheng, Wangjie Yang, Yang Shen, Hong-Bin Shanghai Jiao Tong University Key Lab. of Shanghai Education Commission for Intelligent Interaction and Cognitive Engineering Department of Computer Science and Engineering Shanghai200240 China Institute of Image Processing and Pattern Recognition Shanghai Jiao Tong University Key Laboratory of System Control and Information Processing Ministry of Education of China Shanghai200240 China Shanghai Jiao Tong University Department of Bioinformatics and Biostatistics Shanghai200240 China

ISBN: (纸本)9781728162157

Cryo-electron microscopy (cryo-EM) has become a mainstream technology for solving spatial structures of biomacromolecules, while the processing of cryo-EM images is a very challenging task. One of the great challenges is the high noise in the images. A common method is to cluster the images with close projecting angles to get mean images, which are used for 3D reconstruction. However, due to the extremely low signal-to-noise-ratio, common clustering methods often fail to obtain high-quality mean images, leading to poorly reconstructed structures. In this study, we present a new unsupervised learning framework, called NiuEM, to discriminate images captured from different angles and yield cluster-mean images. NiuEM first generates pseudo-lab.ls and then exploits both contrastive loss and cross-entropy loss for training convolutional layers to learn feature representations. Moreover, the pseudo-lab.ls are updated iteratively to enhance the reliability of lab.ls. We assess the performance of NiuEM on four data sets via both visualized and quantitative experiments. Especially, two kinds of metrics are adopted to measure the performance, regarding the clustering quality and the resolution of reconstructed 3D models, respectively. The experimental results show that NiuEM achieves very competitive clustering accuracy in the comparison with the state-of-the-art image clustering methods. Moreover, the cluster mean images yielded by NiuEM lead to better initial 3D models compared with the mainstream reconstruction tools. © 2020 IEEE.

关键词： Image reconstruction

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A Learning Evasive Email-Based P2P-Like Botnet

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China Communications 2018年第2期15卷 15-24页

作者： Zhi Wang Meilin Qin Mengqi Chen Chunfu Jia Yong Ma College of Computer and Control Engineering Nankai University Tianjin 300350 China Information Security Evaluation Center of Civil Aviation Civil Aviation University of China Tianjin 300300 China Key Lab. on High Trusted Information System in Hebei Province Baoding 071002 China

Nowadays, machine learning is widely used in malware detection system as a core component. The machine learning algorithm is designed under the assumption that all datasets follow the same underlying data distribution. But the real-world malware data distribution is not stable and changes with time. By exploiting the knowledge of the machine learning algorithm and malware data concept drift problem, we show a novel learning evasive botnet architecture and a stealthy and secure C&C mechanism. Based on the email communication channel, we construct a stealthy email-based P2 P-like botnet that exploit the excellent reputation of email servers and a huge amount of benign email communication in the same channel. The experiment results show horizontal correlation learning algorithm is difficult to separate malicious email traffic from normal email traffic based on the volume features and time-related features with enough confidence. We discuss the malware data concept drift and possible defense strategies.

关键词： malware botnet learning evasion command and control

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Standard Analysis for Transfer Delay in CTCS-3

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Chinese Journal of Electronics 2017年第5期26卷 1057-1063页

作者： CAO Yuan MA Lianchuan XIAO Shuo ZHANG Xia XU Wei National Engineering Research Center of Rail Transportation Operation and Control System Beijing Jiaotong University State Key Laboratory of Rail Traffic Control and Safety Beijing Jiaotong University School of Computer Sciences and Technology China University of Mining & Technology National Mobile Communications Research Lab. Southeast University

According to the standard for the GSM for railway(GSM-R) wireless systems in China train control system level 3(CTCS-3),the control data transfer delay should be no larger than 500 ms with greater than99% *** of both non-redundant networks and intercross redundant networks and cases of single Mobile terminals(MTs) and redundant MTs on one train are considered,and the corresponding vehicle-ground communication models,delay models,and fault models are *** simulation results confirm that the transfer delay can meet the standard requirements under all *** particular,the probability is greater than 99.996% for redundant MTs and networks,and the standard of transfer delay in CTCS-3 will be improved inevitably.

关键词： China train control system level 3(CTCS-3) GSM for railway(GSM-R) Data transfer delay Deterministic and stochastic petri net(DSPN)

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AUV dead-reckoning navigation based on neural network using a single accelerometer 11

AUV dead-reckoning navigation based on neural network using ...

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11th ACM International Conference on Underwater Networks and systems, WUWNet 2016

作者： Xie, Yan-Xin Liu, Jun Hu, Cheng-Quan Cui, Jun-Hong Xu, Hongli State Key Laboratory of Robotics CAS No. 114 Nanta Street Shenhe District Shenyang China College of Computer Science and Technology Jilin University Changchun China Underwater Sensor Network Lab. University of Connecticut StorrsCT06269 United States Key Laboratory of System Control and Information Processing Ministry of Education of China Shanghai200240 China

ISBN: (纸本)9781450346375

The accuracy of the Autonomous Underwater Vehicles (AUVs) navigation system determines whether they can safely operate and return. Traditional Dead-reckoning (DR) relies on the inertial sensors such as gyroscope and accelerometer. A major challenge for DR navigation is from measurement error of the inertial sensors (gyroscope, accelerometer, etc.), especially when the AUV is near or at the ocean surface. The AUV's motion is affected by ocean waves, and its pitch angle changes rapidly with the waves. This rapid change and the measurement errors will cause great noise to the direction measured by gyroscopes, and then lead to a large error to the DR navigation. To address this problem, a novel DR method based on neural network (DR-N) is proposed to explore the time-varying relationship between acceleration measurement and orientation measurement, which leverages acoustic localization and neural network estimate timely pitch angle through the explored time-varying relationship. This method enables AUV's DR navigation with a single acceleration, without relying on both acceleration and gyroscope. Most importantly, we can improve the accuracy of AUV navigation through avoiding DR errors caused by gyroscope noise at the sea surface. Simulations show DR-N significantly improves navigation accuracy.

关键词： Accelerometers

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