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Discovering the nuclear localization signal universe through a deep learning model with interpretable attention units

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Patterns 2025年

作者： Li, Yi-Fan Pan, Xiaoyong Shen, Hong-Bin Institute of Image Processing and Pattern Recognition Shanghai Jiao Tong University and Key Laboratory of System Control and Information Processing Ministry of Education of China Shanghai200240 China

We describe NLSExplorer, an interpretable approach for nuclear localization signal (NLS) prediction. By utilizing the extracted information on nuclear-specific sites from the protein language model to assist in NLS detection, NLSExplorer achieves superior performance with greater than 10% improvement in the F1 score compared with existing methods on benchmark datasets and highlights other nuclear transport segments. We applied NLSExplorer to the nucleus-localized proteins in the Swiss-Prot database to extract valuable segments. A comprehensive analysis of these segments revealed a potential NLS landscape and uncovered features of nuclear transport segments across 416 species. This study introduces a powerful tool for exploring the NLS universe and provides a versatile network that can efficiently detect characteristic domains and motifs. © 2025 The Author(s)

关键词： Deep learning

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Adaptive Estimation for Environmental Monitoring Using an Autonomous Underwater Vehicle

Adaptive Estimation for Environmental Monitoring Using an Au...

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IEEE Conference on Decision and control

作者： Ziwen Yang Joana Fonseca Shanying Zhu Cailian Chen Xinping Guan Karl H. Johansson Department of Automation Shanghai Jiao Tong University Shanghai China Key Laboratory of System Control and Information Processing Ministry of Education of China Shanghai China Shanghai Engineering Research Center of Intelligent Control and Management Shanghai China Division of Decision and Control Systems School of Electrical Engineering and Computer Science KTH Royal Institute of Technology Stockholm Sweden Digital Futures

This paper considers the problem of monitoring and adaptively estimating an environmental field, such as temperature or salinity, using an autonomous underwater vehicle (AUV). The AUV moves in the field and persistently measures environmental scalars and its position in its local coordinate frame. The environmental scalars are approximately linearly distributed over the region of interest, and an adaptive estimator is designed to estimate the gradient. By orthogonal decomposition of the velocity of the AUV, a linear time-varying system is equivalently constructed, and the sufficient conditions on the motion of the AUV are established, under which the global exponential stability of the estimation error system is rigorously proved. Furthermore, an estimate of the exponential convergence rate is given, and a reference trajectory that maximizes the estimate of the convergence rate is obtained for the AUV to track. Numerical examples verify the stability and efficiency of the system.

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Dual identification optical sensor for sodium benzoate and potassium sorbate based on UV-DAS combined with SEP-CNN-TL

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Food control 2025年

作者： Junfeng Wang Rui Zhu Jie Gao Fei Xie Mu Li Changyin Li Yungang Zhang Hongbin Lin Key Laboratory of Intelligent Control and Neural Information Processing Ministry of Education Institute of Electrical Engineering Yanshan University Qinhuangdao 066004 China

Simultaneous and accurate detection of sodium benzoate (SB) and potassium sorbate (PS) is crucial for ensuring food safety and protecting human health, given their prevalent application as food preservatives and the significant hazards associated with misuse. A dual identification optical sensor for SB and PS is developed based on ultraviolet direct absorption spectroscopy (UV-DAS) coupled with spectral expansion, convolutional neural network, and transfer learning (SEP-CNN-TL) model in this paper. An SEP method is proposed to address the challenge of acquiring extensive spectral data by exploiting the correlation between concentration and absorbance. Then the CNN-TL model is constructed to minimize the impact of spectral overlap on predictive accuracy. The CNN model is pre-trained using combined absorption spectra (CAS) generated by superimposing the single-component solutions spectra of SB and PS, on which the TL model is trained using mixed absorption spectra (MAS) directly derived from the mixed solutions spectra of the two to fine-tune the CNN model. The model achieves correlation coefficients (R 2 ) of 0.9993 for SB and 0.9995 for PS, with mean absolute errors (MAE) of 0.065 μg/mL and 0.061 μg/mL, respectively. This sensor has a limit of quantification (LOQ) of 0.112 μg/mL for SB and 0.108 μg/mL for PS. Its practical effectiveness has been validated through field testing on beverages, achieving recoveries of 95.36% to 98.04% for SB and 98.33% to 99.83% for PS. This research introduces an innovative approach for the simultaneous detection of multiple preservatives in food products.

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Memristor-based multilayer neural network with edge learning and weight update

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Neurocomputing 2025年

作者： Ningye Jiang Jupeng Xie Mingxuan Jiang Haoen Huang Zhigang Zeng School of Artificial Intelligence and Automation Huazhong University of Science and Technology Wuhan 430074 China Key Laboratory of Image Information Processing and Intelligent Control Ministry of Education of China Wuhan 430074 China

Memristor crossbar array (MCA) is a promising computing-in-memory architecture for accelerating vector-matrix multiplication (VMM). However, existing memristor-based circuits primarily perform forward computations without local learning capabilities. To address the issue, a memristor-based multilayer neural network (MNN) with edge learning is proposed, enabling error backpropagation and one-step weight update. In particular, the overall circuit design of a three-layer MNN is outlined, comprising three operational stages: forward computation, backpropagation, and weight update. Subsequently, the schematics of four adopted circuit blocks are detailed. By integrating the memory and weight update blocks with MCA, the proposed three-layer memristor-based MNN exhibits scalability and universality, allowing it to be extended to the deep neural network (DNN) architecture. Circuit simulations validate the effectiveness of the proposed scheme, while offline-online co-simulations demonstrate its strength in compensating for variations and non-ideal characteristics of physical devices. Comparative results further highlight the advantages of the proposed scheme in realizing full-analog edge learning circuits and performing error backpropagation processes efficiently.

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Recurrent Attentional Reinforcement Learning for Fault Diagnosis of Hydraulic System

Recurrent Attentional Reinforcement Learning for Fault Diagn...

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International Conference on control, Decision and Information Technologies (CoDIT)

作者： Zhenhui Tang Ru Liu Kang Lou Chaojian Gao Jingcheng Wang SJTU Sanya Yazhou Bay Institute of Deepsea Science and Technology Sanya China Department of Automation Shanghai Jiao Tong University Shanghai China Shanghai Marine Equipment Research Institute Shanghai China Department of Automation the Key Laboratory of System Control and Information Processing Ministry of Education of China and the Shanghai Engineering Research Center of Intelligent Control and Management Shanghai Jiao Tong University Shanghai China Autonomous Systems and Intelligent Control International Joint Research Center Xi'an Technological University Xi'an China

ISBN: (数字)9798350373974

ISBN: (纸本)9798350373981

Recognizing fault types of machinery system is a fundamental but challenging task in industrial application. Although data-driven fault diagnosis method attains remarkable progress by learning fault features automatically, the existing data-driven fault diagnosis pipelines learn non-discriminative feature. To deal with these problems, a new data-driven fault diagnosis method with recurrent attentional module is proposed to find a sequence of informative features by localizing distinguishing time fragments about each individual faults iteratively. The contextual sequence dependency between the localized time fragments is enhanced. Then, the fault types are further predicted on localized time fragments. The proposed framework also explicitly models long-term dependencies among these attentional time fragments to capture historical fault information. Experiments on hydraulic system show that the proposed framework achieves superior diagnosis performance and computation efficiency.

关键词： Fault diagnosis Location awareness Accuracy Computational modeling Pipelines Reinforcement learning Hydraulic systems Computational efficiency Information technology

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Robust quantum teleportation via a non-Markovian channel

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Physical Review A 2023年第6期108卷 062406-062406页

作者： Yanfang Wang Shibei Xue Hongbin Song Min Jiang Department of Automation Shanghai Jiao Tong University Shanghai 200240 People's Republic of China Key Laboratory of System Control and Information Processing Ministry of Education of China Shanghai 200240 People's Republic of China Shanghai Engineering Research Center of Intelligent Control and Management Shanghai 200240 People's Republic of China General Education Division and Shenzhen Key Laboratory of Semiconductor Lasers The Chinese University of Hong Kong Shenzhen Guang Dong 518116 People's Republic of China School of Electronics and Information Engineering Soochow University Suzhou 215006 People's Republic of China

In this paper we propose a non-Markovian quantum channel approach to mitigating the degradation of the average fidelity in continuous-variable quantum teleportation. The non-Markovian quantum channel is modeled by an augmented system where ancillary systems are introduced to represent the internal modes of non-Markovian environments. With a proper non-Markovianity, enhanced effects of the channels on continuous-variable quantum teleportation are observed. Also, the logarithmic negativity of entangled states can be effectively maintained so that the decay of the average fidelity of quantum teleportation is mitigated. In addition, the analysis on different teleported quantum states shows that coherent states exhibit stronger robustness than those of squeezed states and cat states in quantum teleportation with a non-Markovian channel.

关键词： Quantum control Quantum engineering Quantum teleportation

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Understanding the Robustness of 3D Object Detection with Bird'View Representations in Autonomous Driving

Understanding the Robustness of 3D Object Detection with Bir...

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Conference on Computer Vision and Pattern Recognition (CVPR)

作者： Zijian Zhu Yichi Zhang Hai Chen Yinpeng Dong Shu Zhao Wenbo Ding Jiachen Zhong Shibao Zheng Institute of Image Communication and Network Engineering Shanghai Jiao Tong University Dept. of Comp. Sci. and Tech. THBI Lab Institute for AI Tsinghua University BNRist Center Zhongguancun Laboratory Key Laboratory of Intelligent Computing and Signal Processing Ministry of Education Information Materials and Intelligent Sensing Laboratory of Anhui Province School of Computer Science and Technology Anhui University SAIC Motor AI Lab

3D object detection is an essential perception task in autonomous driving to understand the environments. The Bird's-Eye-View (BEV) representations have significantly improved the performance of 3D detectors with camera inputs on popular benchmarks. However, there still lacks a systematic understanding of the robustness of these vision-dependent BEV models, which is closely related to the safety of autonomous driving systems. In this paper, we evaluate the natural and adversarial robustness of various representative models under extensive settings, to fully understand their behaviors influenced by explicit BEV features compared with those without BEV. In addition to the classic settings, we propose a 3D consistent patch attack by applying adversarial patches in the 3D space to guarantee the spatiotemporal consistency, which is more realistic for the scenario of autonomous driving. With substantial experiments, we draw several findings: 1) BEV models tend to be more stable than previous methods under different natural conditions and common corruptions due to the expressive spatial representations; 2) BEV models are more vulnerable to adversarial noises, mainly caused by the redundant BEV features; 3) Camera-LiDARfusion models have superior performance under different settings with multi-modal inputs, but BEV fusion model is still vulnerable to adversarial noises of both point cloud and image. These findings alert the safety issue in the applications of BEV detectors and could facilitate the development of more robust models.

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HRPose: Real-Time High-Resolution 6D Pose Estimation Network Using Knowledge Distillation

arXiv

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arXiv 2022年

作者： Guan, Qi Sheng, Zihao Xue, Shibei Department of Automation Shanghai Jiao Tong University Shanghai200240 China Key Laboratory of System Control and Information Processing Ministry of Education of China Shanghai200240 China Shanghai Engineering Research Center of Intelligent Control and Management Shanghai200240 China

Real-time 6D object pose estimation is essential for many real-world applications, such as robotic grasping and augmented reality. To achieve an accurate object pose estimation from RGB images in real-time, we propose an effective and lightweight model, namely High-Resolution 6D Pose Estimation Network (HRPose). We adopt the efficient and small HRNetV2-W18 as a feature extractor to reduce computational burdens while generating accurate 6D poses. With only 33% of the model size and lower computational costs, our HRPose achieves comparable performance compared with state-of-the-art models. Moreover, by transferring knowledge from a large model to our proposed HRPose through output and feature-similarity distillations, the performance of our HRPose is improved in effectiveness and efficiency. Numerical experiments on the widely-used benchmark LINEMOD demonstrate the superiority of our proposed HRPose against state-of-the-art methods. Copyright © 2022, The Authors. All rights reserved.

关键词： Distillation

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High Information Density and Low Coverage Data Storage in DNA with Efficient Channel Coding Schemes

arXiv

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arXiv 2024年

作者： Ding, Yi He, Xuan Nguyen, Tuan Thanh Song, Wentu Yakhini, Zohar Yaakobi, Eitan Pan, Linqiang Tang, Xiaohu Cai, Kui Information Coding and Transmission Key Lab of Sichuan Province Southwest Jiaotong University Sichuan Chengdu611756 China Cluster Singapore University of Technology and Design 487372 Singapore Faculty of Computer Science Technion - Israel Institute of Technology Haifa3200003 Israel School of Computer Science RUNI Herzliya4615200 Israel Key Laboratory of Image Information Processing and Intelligent Control of Education Ministry of China School of Artificial Intelligence and Automation Huazhong University of Science and Technology Hubei Wuhan430074 China

DNA-based data storage has been attracting significant attention due to its extremely high data storage density, low power consumption, and long duration compared to conventional data storage media. Despite the recent advancements in DNA data storage technology, significant challenges remain. In particular, various types of errors can occur during the processes of DNA synthesis, storage, and sequencing, including substitution errors, insertion errors, and deletion errors. Furthermore, the entire oligo may be lost. In this work, we report a DNA-based data storage architecture that incorporates efficient channel coding schemes, including different types of error-correcting codes (ECCs) and constrained codes, for both the inner coding and outer coding for the DNA data storage channel. We also carried out large scale experiments to validate our proposed DNA-based data storage architecture. Specifically, 1.61 and 1.69 MB data were encoded into 30,000 oligos each, with information densities of 1.731 and 1.815, respectively. It has been found that the stored information can be fully recovered without any error at average coverages of 4.5 and 6.0, respectively. This experiment achieved the highest net information density and lowest coverage among existing DNA-based data storage experiments (with standard DNA), with data recovery rates and coverage approaching theoretical optima. Copyright © 2024, The Authors. All rights reserved.

关键词： Channel coding

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Distributionally Robust Day-ahead Scheduling for Power-traffic Network under a Potential Game Framework

arXiv

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arXiv 2022年

作者： Deng, Haoran Yang, Bo Ning, Chao Chen, Cailian Guan, Xinping The Department of Automation Shanghai Jiao Tong University Shanghai200240 China The Key Laboratory of System Control and Information Processing Ministry of Education of China Shanghai200240 China Shanghai Engineering Research Center of Intelligent Control and Management Shanghai200240 China

Widespread utilization of electric vehicles (EVs) incurs more uncertainties and impacts on the scheduling of the power-transportation coupled network. This paper investigates optimal power scheduling for a power-transportation coupled network in the day-ahead energy market considering multiple uncertainties related to photovoltaic (PV) generation and the traffic demand of vehicles. The crux of this problem is to model the coupling relation between the two networks in the day-ahead scheduling stage and consider the intra-day spatial uncertainties of the source and load. Meanwhile, the flexible load with a certain adjustment margin is introduced to ensure the balance of supply and demand of power nodes and consume the renewable energy better. Furthermore, we show the interactions between the power system and EV users from a potential game-theoretic perspective, where the uncertainties are characterized by an ambiguity set. In order to ensure the individual optimality of the two networks in a unified framework in day-ahead power scheduling, a two-stage distributionally robust centralized optimization model is established to carry out the equilibrium of power-transportation coupled network. On this basis, a combination of the duality theory and the Benders decomposition is developed to solve the distributionally robust optimization (DRO) model. Simulations demonstrate that the proposed approach can obtain individual optimal and less conservative strategies. © 2022, CC BY-NC-SA.

关键词： Electric loads

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