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2024 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2024

作者： Fan, Jinli Shen, Ruyi Huang, Xiaodi Zhang, Yanju Guangxi Key Laboratory of Image and Graphic Intelligent Processing Guilin University of Electronic Technology Guilin China College of Computer Science and Technology Huaqiao University Xiamen China

ISBN: (纸本)9798350386226

Transcription factors bind to specific sequences of DNA known as transcription factor binding sites (TFBSs) in order to regulate gene expression. Identifying TFBSs is crucial for deciphering gene expression mechanisms, understanding in vitro life characteristics, and drug design. In recent years, many deep learning methods that utilize only the sequence features or a combination of sequence and shape features have been developed to predict TFBSs. However, these methods have not fully considered the characteristics of TFBSs, and their encoding strategies are relatively simplistic, thereby failing to capture the complex dependencies hidden within TFBSs. To address these issues, we propose a novel deep neural network model called MATL, which integrates sequence and shape features for TFBSs prediction. The model employs techniques such as multi-scale convolution and Transformer, and combines different modules for feature extraction based on the distribution patterns of different feature matrices. Additionally, we introduce transfer learning to address the issue of unsatisfactory prediction results due to insufficient training data in some datasets. As the results indicate, MATL exhibits excellent predictive performance on 165 validated ChIP-seq datasets, surpassing state-of-the-art methods. We also conducted ablation experiments on sequence encoding, feature extraction, and shape modules used in this study, and demonstrated that these modules play a positive role in predicting TFBSs. Moreover, the results also indicated that transfer learning can improve prediction accuracy for some TFBSs datasets with small amounts of data. The source code of MATL is available at https://***/LittleWhiteKing/MATL. © 2024 IEEE.

关键词： Transcription

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SpliceCannon: A novel framework for the prediction of canonical and non-canonical splice sites based on deep learning

SpliceCannon: A novel framework for the prediction of canoni...

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2023 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2023

作者： Zhang, Yanju Qi, Wangjing Lin, Ruohan Fan, Jinli Guilin University of Electronic Technology Guangxi Key Laboratory of Image and Graphic Intelligent Processing Guilin China Huaqiao University College of Computer Science and Technology Xiamen China

ISBN: (纸本)9798350337488

Accurately predicting splice sites in DNA sequences is not only of utmost importance in the study of gene expression and protein synthesis, but also crucial to precisely understanding the pathogenesis of various diseases related to splicing. In the past few decades, several tools for identifying splice sites have been developed, however, many of them ignore the contextual influence in DNA sequences in the process of encoding, consequently leading to considerable false positives in prediction. Additionally, most methods solely investigate canonical splicing whereas pay little attention to non-canonical ones. To address the issues mentioned above, we propose a comprehensive method, SpliceCannon, for accurately predicting both canonical and non-canonical splice sites based on neural networks. This method uses the combination of k-nucleotide frequencies and Doc2vec to encode the sequence, then employs a series of comprehensive neural networks such as bidirectional long short-term memory networks and residual networks to effectively extract features from the original sequence while avoiding the problems such as gradient vanishing. The results demonstrate that our method consistently achieves high accuracy when tested on multiple species. Compared to other recent methods, our model exhibits superior performance, stronger generalization ability, and wider applicability. In particular, The recognition accuracy is also remarkably high on the non-canonical dataset. We envision that this proposed method will serve as a promising tool for splice sites prediction to facilitate genomic research. © 2023 IEEE.

关键词： Bidirectional long short-term memory networks Canonical and non-canonical splice sites Deep learning Skip connection

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Chinese image captioning via double decoding based on visual prompts 5

Chinese image captioning via double decoding based on visual...

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5th International Conference on Computer Vision and Data Mining, ICCVDM 2024

作者： Tan, Weiguo Xiao, Yannan Wen, Yayuan Deng, Zhenrong Huang, Wenming School of Computer Science and Information Security Guilin University of Electronic Technology Guangxi Guilin541004 China Guangxi Key Laboratory of Image and Graphic Intelligent Processing Guangxi Guilin China College of Electronic Engineering Guangxi Normal University Guangxi Guilin China

ISBN: (纸本)9781510682863

The significant progress of vision-language pre-trained models (VLMs) and large language models (LLMs) have provided a feasible new mode for image captioning, which relies on VLMs to process images and then utilizes LLMs to generate captions, simplifying the caption generation process and making it lighter. Based on this mode, to address the issues of deviation between the generated captions and the content of image expressions, incomplete descriptive information, and resource hungry in previous Chinese image captioning models, we propose a Chinese image captioning model via double decoding based on Visual Prompts, DDVP. This model employs the CLIP model as the encoder, the GPT2 model as the decoder, and introduces Visual Prompts, which are keywords related to image content. The model adopts a double decoding approach, first decoding to generate Visual Prompts and then decoding to generate the final captions based on the Visual Prompts. Through evaluation, we have demonstrated that our model achieves competitive results on the AIC-ICC dataset, and while maintaining fluency, the generated captions of DDVP can also cover the information in the image more comprehensively and accurately. © 2024 SPIE.

关键词： Visual languages

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Research on active defense decision-making method for cloud boundary networks based on reinforcement learning of intelligent agent

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High-Confidence Computing 2024年第2期4卷 50-61页

作者： Huan Wang Yunlong Tang Yan Wang Ning Wei Junyi Deng Zhiyan Bin Weilong Li School of Computer Science and Technology Guangxi University of Science and TechnologyLiuzhou 545000China Liuzhou Key Laboratory of Big Data Intelligent Processing and Security Liuzhou 545000China Guangxi Education System Network Security Monitoring Center Liuzhou 545000China Center of Graphics and Information Guangxi ECO-Engineering Vocational&Technical CollegeLiuzhou 545004China

The cloud boundary network environment is characterized by a passive defense strategy,discrete defense actions,and delayed defense feedback in the face of network attacks,ignoring the influence of the external environment on defense decisions,thus resulting in poor defense ***,this paper proposes a cloud boundary network active defense model and decision method based on the reinforcement learning of intelligent agent,designs the network structure of the intelligent agent attack and defense game,and depicts the attack and defense game process of cloud boundary network;constructs the observation space and action space of reinforcement learning of intelligent agent in the non-complete information environment,and portrays the interaction process between intelligent agent and environment;establishes the reward mechanism based on the attack and defense gain,and encourage intelligent agents to learn more effective defense *** designed active defense decision intelligent agent based on deep reinforcement learning can solve the problems of border dynamics,interaction lag,and control dispersion in the defense decision process of cloud boundary networks,and improve the autonomy and continuity of defense decisions.

关键词： Active defense decision-making Cloud boundary network security intelligent agent reinforcement learning Offensive and defensive game

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PCRTAM-Net:A Novel Pre-Activated Convolution Residual and Triple Attention Mechanism Network for Retinal Vessel Segmentation

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Journal of Computer Science & Technology 2023年第3期38卷 567-581页

作者：汪华登李紫正保罗黎兵兵潘细朋刘振丙蓝如师罗笑南 Guangxi Key Laboratory of Image and Graphic Intelligent Processing Guilin 541004China School of Computer Science and Information Security Guilin University of Electronic TechnologyGuilin 541004China School of Artificial Intelligence Guilin University of Electronic TechnologyGuilin 541004China Department of Pathology Ganzhou Municipal HospitalGanzhou 341000China

Retinal images play an essential role in the early diagnosis of ophthalmic *** segmentation of retinal vessels in color fundus images is challenging due to the morphological differences between the retinal vessels and the low-contrast *** the same time,automated models struggle to capture representative and discriminative retinal vascular *** fully utilize the structural information of the retinal blood vessels,we propose a novel deep learning network called Pre-Activated Convolution Residual and Triple Attention Mechanism Network(PCRTAM-Net).PCRTAM-Net uses the pre-activated dropout convolution residual method to improve the feature learning ability of the *** addition,the residual atrous convolution spatial pyramid is integrated into both ends of the network encoder to extract multiscale information and improve blood vessel information flow.A triple attention mechanism is proposed to extract the structural information between vessel contexts and to learn long-range feature *** evaluate the proposed PCRTAM-Net on four publicly available datasets,DRIVE,CHASE_DB1,STARE,and *** model achieves state-of-the-art performance of 97.10%,97.70%,97.68%,and 97.14%for ACC and 83.05%,82.26%,84.64%,and 81.16%for F1,respectively.

关键词： retinal image segmentation triple attention mechanism atrous convolution residual network

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Lightweight image Super-Resolution via Weighted Multi-Scale Residual Network

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IEEE/CAA Journal of Automatica Sinica 2021年第7期8卷 1271-1280页

作者： Long Sun Zhenbing Liu Xiyan Sun Licheng Liu Rushi Lan Xiaonan Luo Guangxi Key Laboratory of Image and Graphic intelligent processing Guilin University of Electronic TechnologyGuilin 541004China National Local Joint Engineering Research Center of Satellite Navigation and Location Service Guilin University of Electronic TechnologyGuilin 541004China the College of Electrical and Information Engineering Hunan UniversityChangsha 410082China

The tradeoff between efficiency and model size of the convolutional neural network(CNN)is an essential issue for applications of CNN-based algorithms to diverse real-world *** deep learning-based methods have achieved significant improvements in image super-resolution(SR),current CNNbased techniques mainly contain massive parameters and a high computational complexity,limiting their practical *** this paper,we present a fast and lightweight framework,named weighted multi-scale residual network(WMRN),for a better tradeoff between SR performance and computational *** the modified residual structure,depthwise separable convolutions(DS Convs)are employed to improve convolutional operations’***,several weighted multi-scale residual blocks(WMRBs)are stacked to enhance the multi-scale representation *** the reconstruction subnetwork,a group of Conv layers are introduced to filter feature maps to reconstruct the final high-quality *** experiments were conducted to evaluate the proposed model,and the comparative results with several state-of-the-art algorithms demonstrate the effectiveness of WMRN.

关键词： Convolutional neural network(CNN) lightweight framework multi-scale super-resolution

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Efficient Construction of Delaunay Triangulations on Riemannian Manifolds with the Bowyer-Watson Method

Efficient Construction of Delaunay Triangulations on Riemann...

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2024 International Symposium on Digital Home, ISDH 2024

作者： Dejiangmo Wang, Qian Zhou, Li Zhang, Xinyun Luo, Dawei Northwest Minzu University Colleage of Mathematics and Computer Science Lanzhou China Guilin University of Electronic Technology Guangxi Key Laboratory of Image and Graphic Intelligent Processing Guilin China

ISBN: (纸本)9798331509873

This paper explores the application of the Bowyer-Watson algorithm for constructing Delaunay triangulations on Riemannian manifolds, with a particular focus on karst terrain and channel detection scenarios. We define geodesic disks with sufficiently small radii and demonstrate the existence of a net within these disks that allows for the construction of triangles satisfying the Delaunay condition. By analyzing the insertion of points both inside and outside of triangles, we ensure proper point placement and perform edge flips as necessary to maintain the Delaunay property. Compared to other algorithms, the Bowyer-Watson approach offers notable advantages for achieving Delau-nay triangulation on Riemannian manifolds due to its flexibility and locality. This method effectively manages complex geometric structures by adaptively adjusting the triangulation, ensuring both accuracy and efficiency in non-Euclidean spaces. It is particularly well-suited for modeling karst terrain features and detecting channels, providing a crucial theoretical foundation and practical guidance for future numerical computations and geometric modeling on curved surfaces. © 2024 IEEE.

关键词： Triangulation

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Named Entity Recognition in Chinese Judicial Domain Based on Self-attention mechanism and IDCNN 8

Named Entity Recognition in Chinese Judicial Domain Based on...

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8th International Conference on Digital Home, ICDH 2020

作者： Huang, Wenming Zhang, Juan Xiao, Yannan Han, Zheng Deng, Zhenrong Guilin University of Electronic Technology School of Computer Science and Information Security Guilin China Key Laboratory of Intelligent Processing of Computer Image and Graphics Guilin China Guilin Bank Guilin China

ISBN: (纸本)9781728192345

Chinese named entity recognition (CNER) in the judicial domain is an important basic task for intelligent analysis and processing of massive documents. This domain entity has more complicated structure than the common named entity, and its entity category is more abundant. However, the general method can not solve the problem of domain specific identification. In this paper, we combine self-attention mechanism and iteration dilated convolution neural network (IDCNN) for CNER in judicial domain. The bidirectional gate recurrent unit (BiGRU) model is used to automatically learn the context semantic information of the text and solve the long-distance dependence of the sequence. The model introduce the IDCNN to extract the key features of context semantic information, and capture finer-grained semantic information in underlying texts. The self-attention mechanism is used to analyze the relationship between characters, and the problem of long sequence semantic dilution is effectively solved by means of dynamic weight, and the optimal tag sequence is calculated by integrating conditional random fields (CRF), which further improves the recognition ability of the model. Finally, by analyzing the characteristics of legal documents, the new data set is annotated and the fine-grained named entity recognition is realized. The experimental results on our corpus show that the proposed method can effectively identify the entities in legal documents, and improve performance in the judicial field. © 2020 IEEE.

关键词： Semantics

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The research of the accessibility and transitivity of topological group

The research of the accessibility and transitivity of topolo...

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2020 International Conference on Virtual Reality and intelligent Systems, ICVRIS 2020

作者： Zhan-Jiang, Ji Wei, Shi Wuzhou University School of Information and Electronic Engineering China Guangxi Colleges Universities Key Laboratory of Image Processing and Intelligent Information System Wuzhou University China Guangxi Colleges China Wuzhou Vocational College China

ISBN: (纸本)9781728196367

The accessibility and transitivity have an important significance in terms of theory and application. The concept of the accessibility and transitivity are introduced in this paper. We study their dynamical properties. The following result are obtained: (l)Let (K , G ) be the hyperspace of (X , G ). Then ( X , G ) is accessible if and only if (K , G ) is accessible;(2) Let (K , G) be the hyperspace of (X , G). Then (X , G ) is transitive if and only if (K , G ) is transitive. These results enriched the theory of the accessibility and transitivity of topological group. © 2020 IEEE.

关键词： Accessibility Topological group Transitivity

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Pedestrian partial occlusion detection method based on improved YOLO network structure

Pedestrian partial occlusion detection method based on impro...

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2019 International Conference on intelligent Computing, Automation and Systems, ICICAS 2019

作者： Chen, guangxi Zhan, Baoying Tang, Min Xie, Chen Guangxi Key Laboratory of Image and Graphic Intelligent Processing Guilin University of Electronic Technology Guilin China School of Mathematics and Computing Science Guilin University of Electronic Technology Guilin China

ISBN: (纸本)9781728161068

The problem of pedestrian detection accuracy is low due to partial occlusion of pedestrians in practical application scenarios, a pedestrian occlusion detection method based on improved YOLOv3 network structure is proposed. By improving the activation function and clustering method to strengthen the feature output layer of the shallow layer of the network, which effectively make the accuracy of detection better. The experimental results show that the mAP of proposed method is improved by 2.63 percent in the INRIA data set, and the improved network has good robustness and generalization ability, and guarantees the real-time of detection. © 2019 IEEE.

关键词： Chemical activation

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