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A Cross-Domain Ontology Semantic Representation Based on NCBI-BlueBERT Embedding

Chinese Journal of Electronics 2022年第5期31卷 860-869页

作者： ZHAO Lingling WANG Junjie WANG Chunyu GUO Maozu Faculty of Computing Harbin Institute of Technology Department of Medical Informatics School of Biomedical Engineering and InformaticsNanjing Medical University Beijing Key Laboratory of Intelligent Processing for Building Big Data School of Electrical and Information Engineering Beijing University of Civil Engineering and Architecture

A common but critical task in biological ontologies data analysis is to compare the difference between ontologies. There have been numerous ontologybased semantic-similarity measures proposed in specific ontology domain, but it still remains a challenge for crossdomain ontologies comparison. An ontology contains the scientific natural language description for the corresponding biological aspect. Therefore, we develop a new method based on natural language processing(NLP) representation model bidirectional encoder representations from transformers(BERT) for cross-domain semantic representation of biological ontologies. This article uses the BERT model to represent the word-level of the ontologies as a set of vectors, facilitating the semantic analysis or comparing the biomedical entities named in an ontology or associated with ontology terms. We evaluated the ability of our method in two experiments: calculating similarities of pair-wise disease ontology and human phenotype ontology terms and predicting the pair-wise of proteins interaction. The experimental results demonstrated the comparative performance. This gives promise to the development of NLP methods in biological data analysis.

关键词： human phenotype ontology cross-domain semantic representation natural language description pair-wise disease ontology data analysis bidirectional encoder representations NLP protein interaction diseases proteins natural language processing ontologies (artificial intelligence) natural language processing representation neural nets bioinformatics semantic-similarity measures cross-domain ontology semantic representation semantic analysis NCBI-BlueBERT embedding biological ontology data analysis

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Pulmonary tuberculosis detection model of chest X-ray images using convolutional neural network

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The Journal of China Universities of Posts and Telecommunications 2018年第6期25卷 1-6页

作者： He Jin Wang Cong Chen Zhao School of Software Engineering Beijing University of Posts and Telecommunications Key Laboratory of Trustworthy Distributed Computing and Service(BUPT) Ministry of Education China Electronic Data Service CO. LTD

The primary screening for pulmonary tuberculosis mainly relies on X-ray imaging all over the world. In recent years, the incidence of pulmonary tuberculosis has rebounded. This paper proposes a convolutional neural networks(CNN) based model on the tuberculosis detection of chest X-ray images, which is used for the automatic screening of pulmonary tuberculosis. Compared with the conventional CNN, this model can be used to detect the details of images and the areas of the disease quickly and accurately. There is an improvement in the learning speed and accuracy rate of our method, so it can better complete the work of anomaly detection and it can provide more effective auxiliary decision information for the practitioners.

关键词： X-ray images pulmonary tuberculosis CNN automatic screening

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scMGCAE: A Masked Graph Cluster Autoencoder for Single-Cell RNA-Seq Clustering 2nd

scMGCAE: A Masked Graph Cluster Autoencoder for Single-Cell ...

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2nd International Conference on Applied Intelligence, ICAI 2024

作者： Wu, Zheyu Wang, Yueyue Zhang, Qinhu Ningbo Institute of Digital Twin Eastern Institute of Technology No. 568 Tongxin Road Zhuangshi Street Zhejiang Ningbo315201 China Big Data and Intelligent Computing Research Center Guangxi Academy of Science Nanning530007 China Institute for Regenerative Medicine Medical Innovation Center and State Key Laboratory of Cardiology School of Medicine Shanghai East Hospital Tongji University Shanghai200123 China School of Electronic Information and Electrical Engineering Shanghai Jiao Tong University No. 800 Dongchuan Road Minhang District Shanghai200240 China

ISBN: (纸本)9789819619061

Single-cell RNA sequencing provides high-throughput gene expression information and offers higher resolution of cell differences compared to bulk RNA sequencing, which helps identify cell types and explore cellular heterogeneity at the single-cell level. Although many single-cell clustering methods based on masked autoencoders have been developed recently, they rarely effectively utilize the correlations between cells, resulting in suboptimal clustering results. In this work, we propose a novel clustering method for scRNA-seq data based on a masked graph convolutional autoencoder, which incorporates a graph convolutional network onto the basis of a masked autoencoder to enhance the capture of the correlation between cells and genes by fusing the cell-cell interaction graph and the gene expression matrix. By increasing the relationships between cells, dimensionality reduction is guided, and a clustering-friendly representation is obtained. We conducted extensive comparative experiments using various clustering evaluation metrics on six scRNA-seq datasets from different sequencing platforms. The experimental results demonstrate that scMGCAE outperforms other methods on these datasets. © The Author(s), under exclusive license to Springer Nature Singapore Pte Ltd. 2025.

关键词： Dimensionality reduction

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An artificial intelligence and blockchain technology-based data management framework for multicenter randomized controlled trials

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Science Bulletin 2025年第6期70卷 856-860页

作者： Dongyuan Yun Xiaohang Wu Xi Chen Yahan Yang Yuanjun Shang Shaopeng Liu Dinesh Visva Gunasekeran Duoru Lin Lixue Liu Lanqin Zhao Wenben Chen Jingjing Chen Ling Jin Yuxuan Wu Jiaming Hong Weiling Hu Zhenzhe Lin Carol Y.Cheung Xiang Chen Peichen Xie Zhenzhen Liu Changhai Ding Patrick Yu-Wai-Man Keming Yu Daniel Shu Wei Ting Yizhi Liu Zibin Zheng Gansen Zhao Zhihua Xia Tien Yin Wong Haotian Lin on behalf of Advanced Technologies Improve Clinical Trial(ATICT)Group State Key Laboratory of Ophthalmology Zhongshan Ophthalmic CenterSun Yat-sen UniversityGuangdong Provincial Key Laboratory of Ophthalmology and Visual ScienceGuangdong Provincial Clinical Research Center for Ocular DiseasesGuangzhou 510000China School of Biomedical Engineering Sun Yat-sen UniversityGuangzhou 510000China School of Computer Science Guangdong Polytechnic Normal UniversityGuangzhou 510000China Singapore Eye Research Institute Singapore National Eye CenterSingapore999002Singapore School of Medical Information Engineering Guangzhou University of Chinese MedicineGuangzhou 510000China Department of Ophthalmology and Visual Sciences The Chinese University of Hong KongHong Kong 999077China Zhongshan School of Medicine Sun Yat-sen UniversityGuangzhou 510000China Clinical Research Center Zhujiang HospitalSouthern Medical UniversityGuangzhou 510000China Cambridge Center for Brain Repair and MRC Mitochondrial Biology Unit Department of Clinical NeurosciencesUniversity of CambridgeCambridgeCB20XYUnited Kingdom UCL Institute of Ophthalmology University College LondonLondonWC1E 6BTUnited Kingdom School of Data and Computer Science Sun Yat-sen UniversityGuangzhou 510000China School of Computer Science South China Normal UniversityGuangzhou 510000China College of Cyber Security Jinan UniversityGuangzhou 510000China Duke-NUS Medical School Singapore999002Singapore Tsinghua Medicine Tsinghua UniversityBeijing 100010China Hainan Eye Hospital and Key Laboratory of Ophthalmology Zhongshan Ophthalmic CenterSun Yat-sen UniversityHaikou 570100China Centre for Precision Medicine and Department of Genetics and Biomedical Informatics Zhongshan School of MedicineSun Yat-sen UniversityGuangzhou 510000China 不详

Randomized controlled trials(RCTs)provide optimal evidence of the effectiveness and safety of a new drug,a new medical device,or a new therapeutic strategy with the necessary scientific design[1].Traditional electronic data collection(EDC)systems for clinical trials primarily focus on data entry,validation,and compliance ***,their reliance on centralized architectures introduces vulnerabilities in data security and integrity。

关键词： Artificial Intelligence Multicenter Randomized Controlled Trials data Security scientific design traditional Blockchain Technology clinical trials randomized controlled trials rcts provide centralized architectures

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Size-fixed group discovery via multi-constrained graph pattern matching

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Information Sciences 2025年 690卷

作者： Guliu Liu Lei Li Guanfeng Liu Xindong Wu Key Laboratory of Knowledge Engineering with Big Data (Hefei University of Technology) Ministry of Education 230601 Hefei China School of Computer Science and Information Engineering Hefei University of Technology 230601 Hefei China Department of Computing Macquarie University Sydney 2122 Australia

Multi-Constrained Graph Pattern Matching (MC-GPM) aims to match a pattern graph with multiple attribute constraints on its nodes and edges, and has garnered significant interest in various fields, including social-based e-commerce and trust-based group discovery. However, the existing MC-GPM methods do not consider situations where the number of each node in the pattern graph needs to be fixed, such as finding experts group with expert quantities and relations specified. In this paper, a Multi-Constrained Strong Simulation with the Fixed Number of Nodes (MCSS-FNN) matching model is proposed, and then a Trust-oriented Optimal Multi-constrained Path (TOMP) matching algorithm is designed for solving it. Additionally, two heuristic optimization strategies are designed, one for combinatorial testing and the other for edge matching, to enhance the efficiency of the TOMP algorithm. Empirical experiments are conducted on four real social network datasets, and the results demonstrate the effectiveness and efficiency of the proposed algorithm and optimization strategies.

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FUSDREAMER: Label-efficient Remote Sensing World Model for Multimodal data Classification

arXiv

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arXiv 2025年

作者： Wang, Jinping Song, Weiwei Chen, Hao Ren, Jinchang Zhao, Huimin School of Computer Sciences Guangdong Polytechnic Normal University Guangzhou510665 China Guangdong Provincial Key Laboratory of Intellectual Property and Big Data Guangdong Polytechnic Normal University Guangzhou510665 China Peng Cheng Laboratory Shenzhen518000 China Department of Applied Mathematics and Theoretical Physics University of Cambridge CambridgeCB3 0WA United Kingdom School of Computer Sciences Guangdong Polytechnic Normal University Guangzhou510640 China National Subsea Centre School of Computing Engineering and Technology Robert Gordon University AberdeenAB10 7AQ United Kingdom

World models significantly enhance hierarchical understanding, improving data integration and learning efficiency. To explore the potential of the world model in the remote sensing (RS) field, this paper proposes a label-efficient remote sensing world model for multimodal data fusion (FusDreamer). The FusDreamer uses the world model as a unified representation container to abstract common and high-level knowledge, promoting interactions across different types of data, i.e., hyperspectral (HSI), light detection and ranging (LiDAR), and text data. Initially, a new latent diffusion fusion and multimodal generation paradigm (LaMG) is utilized for its exceptional information integration and detail retention capabilities. Subsequently, an open-world knowledge-guided consistency projection (OK-CP) module incorporates prompt representations for visually described objects and aligns language-visual features through contrastive learning. In this way, the domain gap can be bridged by fine-tuning the pre-trained world models with limited samples. Finally, an end-to-end multitask combinatorial optimization (MuCO) strategy can capture slight feature bias and constrain the diffusion process in a collaboratively learnable direction. Experiments conducted on four typical datasets indicate the effectiveness and advantages of the proposed FusDreamer. The corresponding code will be released at https://***/ Cimy-wang/FusDreamer. © 2025, CC BY.

关键词： Contrastive Learning

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Polynomial-Time Assignment-Based Cell Association with Generic Utility Functions

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China Communications 2022年第9期19卷 214-228页

作者： Lusheng Wang Chao Fang Hai Lin Min Peng Caihong Kai Key Laboratory of Knowledge Engineering with Big Data Ministry of Education.School of Computer Science and Information EngineeringHefei University of TechnologyHefei 230601China Key Laboratory of Aerospace Information Security and Trusted Computing Ministry of Education.School of Cyber Science and EngineeringWuhan UniversityWuhan 430072China

Cell association is a significant research issue in future mobile communication systems due to the unacceptably large computational time of traditional *** article proposes a polynomial-time cell association scheme which not only completes the association in polynomial time but also fits for a generic optimization objective *** the one hand,traditional cell association as a non-deterministic polynomial(NP)hard problem with a generic utility function is heuristically transformed into a 2-dimensional assignment optimization and solved by a certain polynomial-time algorithm,which significantly saves computational *** the other hand,the scheme jointly considers utility maximization and load balancing among multiple base stations(BSs)by maintaining an experience pool storing a set of weighting factor values and their corresponding *** an association optimization is required,a suitable weighting factor value is taken from the pool to calculate a long square utility matrix and a certain polynomial-time algorithm will be applied for the *** with several representative schemes,the proposed scheme achieves large system capacity and high fairness within a relatively short computational time.

关键词： mobile communication system 2-dimensional assignment problem hungarian algorithm fairness cell association

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Robust Matrix Discriminative Analysis for Feature Extraction From Hyperspectral Images

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IEEE JOURNAL OF SELECTED TOPICS IN APPLIED EARTH OBSERVATIONS AND REMOTE SENSING 2017年第5期10卷 2002-2011页

作者： Hang, Renlong Liu, Qingshan Sun, Yubao Yuan, Xiaotong Pei, Hucheng Plaza, Javier Plaza, Antonio Jiangsu Key Laboratory of Big Data Analysis Technology Nanjing University of Information Science and Technology Nanjing China Beijing Electro-Mechanical Engineering Institute Beijing China Hyperspectral Computing Laboratory University of Extremadura Caceres Spain

Linear discriminative analysis (LDA) is an effective feature extraction method for hyperspectral image (HSI) classification. Most of the existing LDA-related methods are based on spectral features, ignoring spatial information. Recently, a matrix discriminative analysis (MDA) model has been proposed to incorporate the spatial information into the LDA. However, due to sensor interferers, calibration errors, and other issues, HSIs can be noisy. These corrupted data easily degrade the performance of the MDA. In this paper, a robust MDA (RMDA) model is proposed to address this important issue. Specifically, based on the prior knowledge that the pixels in a small spatial neighborhood of the HSI lie in a low-rank subspace, a denoising model is first employed to recover the intrinsic components from the noisy HSI. Then, the MDA model is used to extract discriminative spatial-spectral features from the recovered components. Besides, different HSIs exhibit different spatial contextual structures, and even a single HSI may contain both large and small homogeneous regions simultaneously. To sufficiently describe these multiscale spatial structures, a multiscale RMDA model is further proposed. Experiments have been conducted using three widely used HSIs, and the obtained results show that the proposed method allows for a significant improvement in the classification performance when compared to other LDA-based methods.

关键词： Hyperspectral image (HSI) classification multiscale fusion robust matrix discriminative analysis (RMDA) spatial-spectral feature extraction (FE)

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DPT‐tracker:Dual pooling transformer for efficient visual tracking

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CAAI Transactions on Intelligence Technology 2024年第4期9卷 948-959页

作者： Yang Fang Bailian Xie Uswah Khairuddin Zijian Min Bingbing Jiang Weisheng Li Key Laboratory of Data Engineering and Visual Computing Chongqing University of Posts and TelecommunicationsChongqingChina Department of Mechanical Precision Engineering Malaysia‐Japan International Institute of TechnologyUniversity of Technology MalaysiaKuala LumpurMalaysia Department of Electrical and Computer Engineering Inha UniversityIncheonRepublic of Korea School of Information Science and Technology Hangzhou Normal UniversityHangzhouChina

Transformer tracking always takes paired template and search images as encoder input and conduct feature extraction and target‐search feature correlation by self and/or cross attention operations,thus the model complexity will grow quadratically with the number of input *** alleviate the burden of this tracking paradigm and facilitate practical deployment of Transformer‐based trackers,we propose a dual pooling transformer tracking framework,dubbed as DPT,which consists of three components:a simple yet efficient spatiotemporal attention model(SAM),a mutual correlation pooling Trans-former(MCPT)and a multiscale aggregation pooling Transformer(MAPT).SAM is designed to gracefully aggregates temporal dynamics and spatial appearance information of multi‐frame templates along space‐time *** aims to capture multi‐scale pooled and correlated contextual features,which is followed by MAPT that aggregates multi‐scale features into a unified feature representation for tracking *** tracker achieves AUC score of 69.5 on LaSOT and precision score of 82.8 on Track-ingNet while maintaining a shorter sequence length of attention tokens,fewer parameters and FLOPs compared to existing state‐of‐the‐art(SOTA)Transformer tracking *** experiments demonstrate that DPT tracker yields a strong real‐time tracking baseline with a good trade‐off between tracking performance and inference efficiency.

关键词： human‐computer interfacing image motion analysis pattern recognition signal processing tracking

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EDCIN: enhanced dual-channel interaction network for multi-label text classification

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International Journal of Web Information Systems 2025年

作者： Liu, Xiaoyun Ma, Kun Zhang, Weijuan Qiu, Yanfang Chen, Zhenxiang Ji, Ke Yang, Bo School of Information Science and Engineering University of Jinan Jinan China College of Big Data and Artificial Intelligence Shandong College of Electronic Technology Jinan China Shandong Key Laboratory of Ubiquitous Intelligent Computing University of Jinan Jinan China

Purpose: Multi-label text classification (MLTC) aims to assign relevant labels to each document. Existing approaches primarily focus on semantic attributes manually extracted from a single data source, often neglecting the contextual subtleties of low-frequency tokens. Furthermore, each label carries its own unique semantic meaning, yet traditional models typically fail to capture the fine-grained relationships between labels and their intrinsic semantic information. The purpose of this study is to address these issues by proposing an enhanced dual-channel interaction network (EDCIN) to deeply explore the dependencies between text and labels. Design/methodology/approach: This approach is composed of three main components: smooth-guided data augmentation, dual-channel feature interaction and the classifier. Specifically, the smooth-guided data augmentation is designed to evaluate the relative importance of each word, enabling the adjustment of text feature distributions. The dual-channel feature interaction focuses on learning the complex relationships between the textual content and its associated labels. Findings: The EDCIN model demonstrates strong performance on both the AAPD and RCV1 data sets. On the AAPD data set, the values of P@n and nDCG@n are 86.84%, 62.71%, 42.04%, 83.05% and 86.07%, respectively. On the RCV1 data set, P@n and nDCG@n achieve 97.41%, 84.75%, 59.02%, 95.30% and 95.61%, respectively. These results highlight its effectiveness on MLTC tasks. Originality/value: The smooth-guided data augmentation adjusts the distribution of text features and captures the complete semantic context. The dual-channel feature interaction thoroughly analyzes the intrinsic semantic information of labels by learning the complex feature relationships between the textual content and associated labels. © 2025, Emerald Publishing Limited.

关键词： Labeled data

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