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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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Modeling Rumor Unidirectional Spreading from Online Social Networks to Offline 23

Modeling Rumor Unidirectional Spreading from Online Social N...

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Proceedings of the 2023 7th International Conference on Electronic Information Technology and Computer Engineering

作者： Qiyi Han Yi Chen Key Laboratory of Pattern Recognition and Intelligent Information Processing School of Computer Science Chengdu University China College of Electronic Engineering Chengdu University of Information Technology China

ISBN: (纸本)9798400708305

Online social networks not only facilitate the dissemination of information, but also increase the risk of rumors. This paper focuses on studying the unidirectional spread of rumors from online social networks to offline environments. To describe the dynamic process of rumor spreading, we derive a unidirectional coupled network structure and mean-field equations. We illustrate the performance of rumor spreading under various scenarios using computer simulations. The simulations reveal that rumors in unidirectional coupled networks spread faster and wider than those in single layer networks. Furthermore, with the assistance of unidirectional links, rumors tend to persist for a longer duration and cause more severe damages.

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Research on the Detection of Abnormal Cervical Cells Based on Improved YOLOv7

Research on the Detection of Abnormal Cervical Cells Based o...

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6th International Conference on Intelligent Computing and Signal processing (ICSP)

作者： Xuewei Wang Shuang Yuan Lidong Yang Dawei Niu Inner Mongolia Key Laboratory of Pattern Recognition and Intelligent Image Processing Inner Mongolia University of Science and Technology School of Digtial and Intelligence Industry Inner Mongolia China

ISBN: (数字)9798350376548

ISBN: (纸本)9798350376555

Cervical cytologic screening is clinically important for the prevention and diagnosis of cervical cancer. Aiming at the many challenges in the detection of abnormal cervical cells, including the difficult detection of small targets of abnormal cervical cells, complex backgrounds, and uneven cell morphology, a detection algorithm for abnormal cervical cells based on improved YOLOv7 was proposed. The algorithm utilizes Deformable Convolutional Networks v2 (DCNv2) that adaptively de-tunes the scale and receptive field size to more effectively cope with the complexity and diversity of cervical cell images. The experimental results show that the improved YOLOv7 algorithm mAP achieves 57.26%, up to 73.88% accuracy, and 46.90% recall on the cervical abnormal cell dataset. Compared with the benchmark model, they increased by 4.07%, 3.39%, and 5.69%, respectively.

关键词： Accuracy Sensitivity Shape Prevention and mitigation Signal processing algorithms Signal processing Feature extraction Convolutional neural networks Detection algorithms Cervical cancer

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FoldExplorer: Fast and Accurate Protein Structure Search with Sequence-Enhanced Graph Embedding

arXiv

引用

arXiv 2023年

作者： Liu, Yuan Shen, Hong-Bin Institute of Image Processing and Pattern Recognition Shanghai Jiao Tong University Key Laboratory of System Control and Information Processing Ministry of Education of China Shanghai China

The advent of highly accurate protein structure prediction methods has fueled an exponential expansion of the protein structure database. Consequently, there is a rising demand for rapid and precise structural homolog search. Traditional alignment-based methods are dedicated to precise comparisons between pairs, exhibiting high accuracy. However, their sluggish processing speed is no longer adequate for managing the current massive volume of data. In response to this challenge, we propose a novel deep-learning approach FoldExplorer. It harnesses the powerful capabilities of graph attention neural networks and protein large language models for protein structures and sequences data processing to generate embeddings for protein structures. The structural embeddings can be used for fast and accurate protein search. And the embeddings also provide insights into the protein space. FoldExplorer demonstrates a substantial performance improvement of 5% to 8% over the current state-of-the-art algorithm on the benchmark datasets. Meanwhile, FoldExplorer does not compromise on search speed and excels particularly in searching on a large-scale dataset. Copyright © 2023, The Authors. All rights reserved.

关键词： Embeddings

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Aggregating Correlation Filter with Multiple Kernels Learning for Robust Visual Object Tracking 22

Aggregating Correlation Filter with Multiple Kernels Learnin...

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8th International Conference on Computing and Artificial Intelligence, ICCAI 2022

作者： Wei, Yanxia Xiao, Hairong Feng, Deying Mu, Jian Yang, Jie School of Mechanical and Automotive Engineering Liaocheng University China Key Laboratory of System Control and Information Processing Ministry of Education Shanghai China Liaocheng University China Institute of Image Processing and Pattern Recognition Shanghai Jiao Tong University China

ISBN: (纸本)9781450396110

Recently, Discriminative Correlation Filter based trackers have increasingly become popular in the domain of visual object tracking, which is benefited by their effective and robustness in terms of tracking performance. However, the significant variations of target appearance, such as Occlusion or Deformation, always suppress the performance improvement. Although the multi-feature fusion strategy partly alleviates the above factors, the synthetic scheme also ambiguates the overall presentation ability of multiple features and results in degradation of discriminative power during classification filter learning. In this paper, we present a novel tracking framework based on the correlation filter with multiple kernel learning. Instead of directly integrating different features, we decompose a tracking process into several module, including low-dimension modules and high-dimension modules. The handcraft features extracted from low-dimension modules are robust to the small variation of target while the semantic convolutional features from the high-dimension modules can distinguish the target object from the relative complex tracking environment. In addition, we also design a reliability detection mechanism based on the confidence map to accurately measure the important degree of each kernel learning and precisely estimate the target state in the subsequent frames. For verifying our proposed tracker, we conduct extensive experiments on several standard sequence benchmark. Experiment results show that our proposed trackers perform favorably against other state-of-the-art trackers. © 2022 ACM.

关键词： Semantics

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Motion Planning and Tracking Control Method Based on CoppeliaSim for UGV in Irregular Terrain

Motion Planning and Tracking Control Method Based on Coppeli...

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WRC Symposium on Advanced Robotics and Automation (WRC SARA)

作者： Jiale Huang Zhihua Chen Yongbo Zhong Wenrui Zeng Chuanmin Ji key Laboratory of Jiangxi Province for Image Processing and Pattern Recognition and MOE Key Lab of Nondestructive Testing Technology Nanchang Hangkong University Nanchang China

Path planning and tracking algorithms are one of the cores of autonomous navigation technology for unmanned ground vehicle (UGV). In this paper, a local obstacle avoidance method based on event-triggered control is proposed to ensure that the UGV avoids obstacles in the tracking process. First, the path planning and tracking control problem of the UGV is modeled and formulated. Second, the improvement and logical correlation of the relevant algorithms are described in detail. Finally, ajoint simulation of MATLAB and V-rep is performed. The simulation results show that event-triggered control can largely improve the reliability of the UGV path planning and tracking process, and verify the effectiveness of the algorithm.

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Learning Analysis of Kernel Ridgeless Regression with Asymmetric Kernel Learning

arXiv

引用

arXiv 2024年

作者： He, Fan He, Mingzhen Shi, Lei Huang, Xiaolin Suykens, Johan A.K. STADIUS Center for Dynamical Systems Signal Processing and Data Analytics KU Leuven Leuven Belgium MOE Key Laboratory of System Control and Information Processing Institute of Image Processing and Pattern Recognition Shanghai Jiao Tong University Shanghai China Shanghai Key Laboratory for Contemporary Applied Mathematics School of Mathematical Sciences Fudan University Shanghai200433 China Shanghai Artificial Intelligence Laboratory Shanghai200232 China MOE Key Laboratory of System Control and Information Processing Institute of Image Processing and Pattern Recognition Institute of Medical Robotics Shanghai Jiao Tong University Shanghai200240 China

Ridgeless regression has garnered attention among researchers, particularly in light of the "Benign Overfitting" phenomenon, where models interpolating noisy samples demonstrate robust generalization. However, kernel ridgeless regression does not always perform well due to the lack of flexibility. This paper enhances kernel ridgeless regression with Locally-Adaptive-Bandwidths (LAB) RBF kernels, incorporating kernel learning techniques to improve performance in both experiments and theory. For the first time, we demonstrate that functions learned from LAB RBF kernels belong to an integral space of Reproducible Kernel Hilbert Spaces (RKHSs). Despite the absence of explicit regularization in the proposed model, its optimization is equivalent to solving an 0-regularized problem in the integral space of RKHSs, elucidating the origin of its generalization ability. Taking an approximation analysis viewpoint, we introduce an lq-norm analysis technique (with 0 © 2024, CC BY.

关键词： Vector spaces

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Object Detector based on Enhanced Multi-scale Feature Fusion Pyramid Network 5

Object Detector based on Enhanced Multi-scale Feature Fusion...

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5th IEEE Advanced Information Technology, Electronic and Automation Control Conference, IAEAC 2021

作者： Zhao, Luan Zhang, Xiaofeng Nanchang Hangkong University Key Laboratory of Jiangxi Province for Image Processing and Pattern Recognition School of Information Engineering Nanchang China

Constructing the pyramidal architecture for the feature is currently a very effective way to obtain feature information of objects at different scales. Although the feature pyramid can realize the recognition and detection of multi-scale objects in the object detection task well, it still has some limitations. Since the feature information of different levels is often not from the same layer of the network, it is difficult to obtain the feature of different objects information at a certain scale from a certain level feature map of the pyramid network. To solve this problem, we present a novel object detection architecture, named Enhanced Multi-scale Feature Fusion Pyramid Network (EMFFPNet). Our network consists of Enhanced Multi-scale Feature Fusion Module (EMFFM) and Predictor Optimization Module (POM). In EMFFM, Features at different levels can be fused into the Enhanced features as outputs, which are more representative and deterministic. In order to enable the enhanced features to play their respective roles in the pyramid network, we assign different weights to fusion features of different levels in POM. We perform the experiments on the COCO detection benchmark. The experimental results indicate that the performance of our model is much better than the state-of-the-art model. © 2021 IEEE.

关键词： Object detection

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An Unsupervised Person Search Method for Video Surveillance 22

An Unsupervised Person Search Method for Video Surveillance

引用

8th International Conference on Computing and Artificial Intelligence, ICCAI 2022

作者： Feng, Deying Yang, Jie Wei, Yanxia Xiao, Hairong Zhang, Laigang School of Mechanical and Automotive Engineering Liaocheng University China Key Laboratory of System Control and Information Processing Ministry of Education Shanghai China Institute of Image Processing and Pattern Recognition Shanghai Jiao Tong University Shanghai China Liaocheng University China

ISBN: (纸本)9781450396110

We propose an unsupervised person search method for video surveillance. This method considers both the spatial features of persons within each frame and the temporal relationship of the same person among different frames. Thus, the spatial features are extracted by region convolutional neural network, and the temporal relationship is organized by gate recurrent unit. The spatio-temporal features are generated by the following average pooling layer and indexed by locality sensitive hashing. A surveillance video database is constructed to evaluate the proposed method, and the experimental results demonstrate that our method improves the search accuracy by utilizing the spatio-temporal features. © 2022 ACM.

关键词： Monitoring

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Dense Connected Residual Generative Adversarial Network for Single Image Deblurring 5

Dense Connected Residual Generative Adversarial Network for ...

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5th IEEE Advanced Information Technology, Electronic and Automation Control Conference, IAEAC 2021

作者： Qian, Pan Wu, Yeyun Zhang, Xiaofeng Nanchang Hangkong University School of Information Engineering Key Laboratory of Jiangxi Province for Image Processing and Pattern Recognition Nanchang China

Recently, deep convolutional learning has been applied to image deblurring, which greatly improves the performance of single-image blind deblurring algorithms. However, most deep image deblurring models based on convolutional neural networks do not make full use of the information of low-level spatial convolutions, so they achieve relatively poor performance. In this paper, we improved the generator of the Generative Adversarial Network (GAN) and proposed dense networks and residual networks to solve this problem in image deblurring. The network makes full use of the hierarchical features of all convolutional layers. Specifically, we extract the local features of the convolutional layer through the proposed densely connected convolutional layer. Moreover, the dense connections of the residual dense network can connect all layers from the previous state to the current state. Then using local jump connection and feature fusion, it can adaptively learn more effective features from the previous and current local features, making the trained network more extensive. After fully obtaining the dense local features, the global residual connection is used to learn the global feature information in an overall manner. Experimental comparison and verification have proved the effectiveness of our method and achieved excellent results both quantitatively and qualitatively. © 2021 IEEE.

关键词： Generative adversarial networks

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