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IEEE International Conference on Bioinformatics and Biomedicine (BIBM)

作者： Ran Su Jin Xiao Hui Cui Ping Xuan Xikang Feng Leyi Wei Qiangguo Jin School of Computer Software College of Intelligence and Computing Tianjin University Tianjin China Department of Computer Science and Information Technology La Trobe University Melbourne Australia Department of Computer Science School of Engineering Shantou University China School of Software Northwestern Polytechnical University China AIDD Faculty of Applied Science Macao Polytechnic University Macao SAR China School of Information Xiamen University Xiamen China Yangtze River Delta Research Institute of Northwestern Polytechnical University Taicang China

ISBN: (数字)9798350386226

ISBN: (纸本)9798350386233

Gliomas hold a prominent position in neurooncology due to their high malignancy and poor survival rates. Accurately predicting the prognosis and survival risk of glioma patients is crucial for clinical treatment. Recent advances in survival prediction methods emphasize the importance of integrating complementary information from diverse modalities while neglecting the significant modality gap between pathological images and genomic data. To address this issue, we propose a modality-specific knowledge interaction network (MSKI-Net), which integrates whole slide images (WSI), RNA-Seq gene expression data, and copy number variation (CNV) data for glioma survival analysis. The MSKI-Net consists of a modality-specific feature enhancement (MSFE) module, a modality-interactive cross-attention (MICA) module, and a modality-specific knowledge-guided representation learning (MSKR) module. The three modules collaborate by complementing modality-specific features with modality-agnostic knowledge to improve the learning capability of MSKI-Net. Furthermore, we construct a dataset named TCGA mm , which combines WSI, RNA-Seq, and CNV data from The Cancer Genome Atlas (TCGA) to address the issue of data scarcity. Extensive experiments demonstrate that MSKI-Net achieves superior performance in predicting the survival risk of glioma cancer.

关键词： Knowledge engineering Representation learning Pathology Genomics Prediction methods Data models Gene expression Bioinformatics Prognostics and health management Cancer

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Report-Guided Cross-Modal Representation Learning for Predicting EGFR Mutations by Whole Slide Image

Report-Guided Cross-Modal Representation Learning for Predic...

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IEEE International Conference on Bioinformatics and Biomedicine (BIBM)

作者： Qi Qiao Jun Shi Zhiguo Jiang Wei Wang Haibo Wu Yushan Zheng School of Computer Science and Information Engineering Hefei University of Technology Hefei China School of Software Hefei University of Technology Hefei China Image Processing Center School of Astronautics Beihang University Beijing China Department of Pathology the First Affiliated Hospital of USTC Division of Life Sciences and Medicine University of Science and Technology of China Hefei China Intelligent Pathology Institute Division of Life Sciences and Medicine University of Science and Technology of China Hefei China School of Engineering Medicine Beijing Advanced Innovation Center for Biomedical Engineering Beihang University Beijing China

ISBN: (数字)9798350386226

ISBN: (纸本)9798350386233

Traditional PCR/NGS-based multigene panel testing is time-consuming and costly. Predicting EGFR mutations directly from H&E stained whole slide images (WSIs) can alleviate these limitations. Furthermore, histopathological reports contain valuable textual information that correlates with tissue areas in WSIs. However, recent research mainly analyses EGFR mutation status only from a single modality, ignoring rich information contained in reports. In this paper, we propose a report-guided cross-modal representation learning method for predicting EGFR mutations by WSIs. Specifically, we reconstruct report-level embeddings through exploring intrinsic relationships between diagnostic words in histopathological reports and tissue areas in WSIs. Finally, reconstructed histopathological report embedding and aggregated WSI embedding are fused for final prediction. More importantly, molecular testing report is also introduced as prior supervision information at the training stage to guarantee semantic consistency of fused feature and molecular report embedding. We evaluate our method on the TCGA-EGFR public benchmark dataset and an in-house clinical dataset (USTC-EGFR). Experimental results demonstrate that our method outperforms existing approaches in EGFR mutation prediction, highlighting the benefits of cross-modal learning in enhancing feature representational ability. The code is available at https://***/HFUT-miaLab/RCRL.

关键词： Representation learning Training Codes Supervised learning Semantics Medical treatment Benchmark testing Bioinformatics Image reconstruction Biomedical imaging

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An ADRC-Incorporated Stochastic Gradient Descent Algorithm for Latent Factor Analysis

arXiv

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arXiv 2024年

作者： Li, Jinli Yuan, Ye The School of Computer Science and Technology Chongqing University of Posts and Telecommunications Chongqing400065 China The Chongqing Key Laboratory of Big Data and Intelligent Computing Chongqing Engineering Research Center of Big Data Application for Smart Cities Chongqing Institute of Green and Intelligent Technology Chinese Academy of Sciences Chongqing400714 China The College of Computer and Information Science Southwest University Chongqing400715 China

High-dimensional and incomplete (HDI) matrix contains many complex interactions between numerous nodes. A stochastic gradient descent (SGD)-based latent factor analysis (LFA) model is remarkably effective in extracting valuable information from an HDI matrix. However, such a model commonly encounters the problem of slow convergence because a standard SGD algorithm only considers the current learning error to compute the stochastic gradient without considering the historical and future state of the learning error. To address this critical issue, this paper innovatively proposes an ADRC-incorporated SGD (ADS) algorithm by refining the instance learning error by considering the historical and future state by following the principle of an ADRC controller. With it, an ADS-based LFA model is further achieved for fast and accurate latent factor analysis on an HDI matrix. Empirical studies on two HDI datasets demonstrate that the proposed model outperforms the state-of-the-art LFA models in terms of computational efficiency and accuracy for predicting the missing data of an HDI matrix. Copyright © 2024, The Authors. All rights reserved.

关键词： Stochastic systems

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Tensor Graph Convolutional Network for Dynamic Graph Representation Learning

arXiv

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arXiv 2024年

作者： Wang, Ling Yuan, Ye The School of Computer Science and Technology Chongqing University of Posts and Telecommunications Chongqing400065 China The Chongqing Key Laboratory of Big Data and Intelligent Computing Chongqing Engineering Research Center of Big Data Application for Smart Cities Chongqing Institute of Green and Intelligent Technology Chinese Academy of Sciences Chongqing400714 China The College of Computer and Information Science Southwest University Chongqing400715 China

Dynamic graphs (DG) describe dynamic interactions between entities in many practical scenarios. Most existing DG representation learning models combine graph convolutional network and sequence neural network, which model spatial-temporal dependencies through two different types of neural networks. However, this hybrid design cannot well capture the spatial-temporal continuity of a DG. In this paper, we propose a tensor graph convolutional network to learn DG representations in one convolution framework based on the tensor product with the following two-fold ideas: a) representing the information of DG by tensor form;b) adopting tensor product to design a tensor graph convolutional network modeling spatial-temporal feature simultaneously. Experiments on real-world DG datasets demonstrate that our model obtains state-of-the-art performance. Copyright © 2024, The Authors. All rights reserved.

关键词： Tensors

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Traffic-Aware Fast Reroute Mechanism Exploiting Disjoint Subpaths for Named Data Networks

Traffic-Aware Fast Reroute Mechanism Exploiting Disjoint Sub...

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IEEE International Conference on Communications (ICC)

作者： Boyang Zhou Chunming Wu Qiang Yang Zhen Zhu Yinghui Nie Wenjie Yu Zhejiang Lab Intelligent Networks Institute Hangzhou China College of Computer Science Zhejiang University Hangzhou China College of Electrical Engineering Zhejiang University Hangzhou China School of Intelligent Science and Technology Hangzhou Institute for Advanced Study UCAS Hangzhou China

The popularized named data network (NDN) needs a fast reroute (FRR) to improve resilience in dealing with the norm of link faults. The resilience of the existing disjoint arborescences and paths based approaches is restricted in reroute options, due to the limited number of disjoint end-to-end routes available. Such restrictions can be weakened by exploiting of the disjoint subpaths (DSP) between two intermediate nodes in the primary path (PP), as what DSP can link together is not only the two ends. In this paper, we propose a novel NDN based traffic-aware fast reroute (TA-FRR) mechanism that exploits a new resilient subgraph (RSG) route involving multiple DSPs. TA-FRR proactively constructs an RSG with scalable computational complexity to maximize the resilience and to avoid a too high reroute stretch. In the RSG, TA-FRR efficiently computes the shortest detour path for the disconnected components actively identified according to packet arrival timeouts. We evaluated the performance of TA-FRR in the ndnSIM simulator using synthsized Internet topologies with different degrees of link faults. The results show that TA-FRR can efficiently recover serious link faults in PP with a scalable RSG construction and outperforms the existing approaches with a significantly higher resilience and the maximum stretch similar to the arborescences approach.

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ACDMSR: Accelerated Conditional Diffusion Models for Single Image Super-Resolution

arXiv

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arXiv 2023年

作者： Niu, Axi Trung, Pham Xuan Zhang, Kang Sun, Jinqiu Zhu, Yu Kweon, In So Zhang, Yanning School of Computer Science Northwestern Polytechnical University Xi’an710072 China National Engineering Laboratory for Integrated Aero-Space-Ground-Ocean Big Data Application Technology Xi’an710072 China School of Electrical Engineering Korea Advanced Institute of Science and Technology Korea Republic of School of Astronautics Northwestern Polytechnical University Xi’an710072 China

Diffusion models have gained significant popularity in the field of image-to-image translation. Previous efforts applying diffusion models to image super-resolution (SR) have demonstrated that iteratively refining pure Gaussian noise using a U-Net architecture trained on denoising at various noise levels can yield satisfactory high-resolution images from low-resolution inputs. However, this iterative refinement process comes with the drawback of low inference speed, which strongly limits its applications. To speed up inference and further enhance the performance, our research revisits diffusion models in image super-resolution and proposes a straightforward yet significant diffusion model-based super-resolution method called ACDMSR (accelerated conditional diffusion model for image super-resolution). Specifically, our method adapts the standard diffusion model to perform super-resolution through a deterministic iterative denoising process. Our study also highlights the effectiveness of using a pre-trained SR model to provide the conditional image of the given low-resolution (LR) image to achieve superior high-resolution results. We demonstrate that our method surpasses previous attempts in qualitative and quantitative results through extensive experiments conducted on benchmark datasets such as Set5, Set14, Urban100, BSD100, and Manga109. Moreover, our approach generates more visually realistic counterparts for low-resolution images, emphasizing its effectiveness in practical scenarios. © 2023, CC BY.

关键词： Image enhancement

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Optimizing Neighborhood Area Network Topology for Enhanced Communication in Smart Grid

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IEEE Transactions on Consumer Electronics 2025年

作者： Li, Jian-Hui Ding, Yuemin Yu, Zu-Guo Zhang, Weizhe Ren, Honglin Tian, Yu-Chu Xiangtan University National Center for Applied Mathematics in Hunan Key Laboratory of Intelligent Computing and Information Processing of the Ministry of Education of China Xiangtan University Hunan 411105 China Queensland University of Technology School of Computer Science BrisbaneQLD Australia University of Navarra Ikerbasque Foundation Tecnun School of Engineering San Sebastián Spain Bilbao Spain Harbin Institute of Technology School of Computer Science and Technology Shenzhen China

In modern power grids, smart meters, as a type of consumer electronics, act as metering and communication nodes, which form Neighborhood Area Networks (NANs) spanning electricity distribution networks from substations to energy producers and consumers. In smart meter communication, wireless technologies have been widely adopted due to their inherent advantages of easier installation, flexibility, and low cost. For achieving low-latency communications in NANs, it is crucial to optimize the existing topology to enhance communication efficiency. However, optimizing the NAN topology is a challenging task due to the computational infeasibility of obtaining the optimal solution. To tackle this challenge, topology optimization in NANs is first formulated into a combinatorial optimization problem. After that, a heuristic solution driven by complex network theory is presented to solve the formulated optimization problem. The proposed heuristic solution consists of an effective network rewiring scheme and a long-range edge connection strategy. The rewiring optimizes the topology of wireless NANs to reduce local network length, whilst the long-range edge connection best pairs a small number of NAN nodes to reduce global network length. Numerical studies are conducted on diverse case studies to demonstrate the presented solution to enhance communication efficiency in smart grid NANs, outperforming the benchmark schemes. © 1975-2011 IEEE.

关键词： Combinatorial optimization

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Automated Detection of Epileptic Spikes and Seizures Incorporating a Novel Spatial Clustering Prior

Automated Detection of Epileptic Spikes and Seizures Incorpo...

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2024 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2024

作者： Dong, Hanyang Sheng, Shurong Wang, Xiongfei Gao, Jia-Hong Sun, Yi Yang, Wanli Xiao, Kuntao Teng, Pengfei Luan, Guoming Lv, Zhao Anhui University School of Artificial Intelligence Hefei230601 China Hefei Comprehensive National Science Center Anhui Province Key Laboratory of Biomedical Imaging and Intelligent Processing Institute of Artificial Intelligence Hefei230088 China Sanbo Brain Hospital Capital Medical University Beijing Key Laboratory of Epilepsy Department of Neurosurgery Beijing China Peking University McGovern Institute for Brain Research Beijing China Peking University Center for Mri Research Academy for Advanced Interdisciplinary Studies Beijing China Peking University Beijing City Key Lab for Medical Physics and Engineering Institute of Heavy Ion Physics School of Physics Beijing China Anhui University Anhui Province Key Laboratory of Multimodal Cognitive Computation School of Computer Science and Technology Hefei230601 China

ISBN: (纸本)9798350386226

A Magnetoencephalography (MEG) time-series recording consists of multi-channel signals collected by superconducting sensors, with each signal's intensity reflecting magnetic field changes over time at the sensor location. Automating epileptic MEG spike detection significantly reduces manual assessment time and effort, yielding substantial clinical benefits. Existing research addresses MEG spike detection by encoding neural network inputs with signals from all channel within a time segment, followed by classification. However, these methods overlook simultaneous spiking occurred from nearby sensors. We introduce a simple yet effective paradigm that first clusters MEG channels based on their sensor's spatial position. Next, a novel convolutional input module is designed to integrate the spatial clustering and temporal changes of the signals. This module is fed into a custom MEEG-ResNet3D developed by the authors, which learns to extract relevant features and classify the input as a spike clip or not. Our method achieves an F1 score of 94.73% on a large real-world MEG dataset Sanbo-CMR collected from two centers, outperforming state-of-the-art approaches by 1.85%. Moreover, it demonstrates efficacy and stability in the Electroencephalographic (EEG) seizure detection task, yielding an improved weighted F1 score of 1.4% compared to current state-of-the-art techniques evaluated on TUSZ, whch is the largest EEG seizure dataset. © 2024 IEEE.

关键词： Magnetoencephalography

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Electron-phonon coupling superconductivity and tunable topological state in carbon-rich selenide monolayers

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Physical Review B 2023年第18期107卷 184115-184115页

作者： Panlong Kong Xiaotao Zhang Jingjing Wang Wenhui Tian Yuxiang Ni Bai Sun Hongyan Wang Hui Wang Yuan Ping Feng Yuanzheng Chen School of Physical Science and Technology Southwest Jiaotong University Chengdu 610031 China College of Computer and Information Engineering Hubei Normal University Huangshi 435002 China Frontier Institute of Science and Technology (FIST) Xi'an Jiaotong University Xi'an Shaanxi 710049 China Department of Physics and Centre for Advanced Two-Dimensional Materials National University of Singapore Singapore 117551 Singapore

The coexistence of Dirac cones and Van Hove singularities (VHSs), as the notable feature on prominent electronic band structure in recently hot-topic Lieb lattice and twisted graphene superlattice materials, has recently drawn tremendous attention since it offers an ideal platform for realizing correlation-driven electronic states (e.g., superconductivity and topological state). Here, we have identified two two-dimensional (2D) crystals, namely C4Se and C5Se, which exhibit the coexistence of Dirac cones and VHSs. Based on ab initio calculations and the Bardeen-Cooper-Schrieffer theory, we investigated the electron-phonon coupling and possible superconductivity in both structures. The results indicate that C4Se possesses intrinsic superconducting states, whereas C5Se exhibits tunable superconductivity when doped. Their superconducting critical temperature (Tc) can reach up to 11.6 and 11.2 K, respectively, surpassing the majority of 2D superconductors. Besides, we uncovered an approximate Dirac cone in C6Se with a small band gap of 0.17 eV. Via the application of a biaxial compressive strain, remarkably, the C6Se can be transformed into a topological insulator. These findings highlight the potential of carbon-rich C-Se 2D crystals as a promising platform for investigating fascinating band structures and physical states, thus advancing our comprehension of 2D crystals.

关键词： Composition Density of states Edge states Electron-phonon coupling Electronic structure First-principles calculations Structural properties Superconductivity van Hove singularity

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Twitter Sentiment Analysis in Covid-19 Pandemic 12

Twitter Sentiment Analysis in Covid-19 Pandemic

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12th IEEE Annual Information technology, Electronics and Mobile Communication Conference, IEMCON 2021

作者： Madanian, Samaneh Airehrour, David Samsuri, Nabilah Ahmad Cherrington, Marianne Auckland University of Technology Department of Computer Science and Software Engineering Auckland New Zealand School of Applied Business Unitec Institute of Technology Auckland New Zealand Auckland University of Technology Department of Mathematical Sciences Auckland New Zealand School of Computing and Engineering University of Huddersfield Huddersfield United Kingdom

ISBN: (纸本)9781665400664

We have yet to realise the full capability of social media as an innovative information platform during emergencies and crisis response and management. Sentiment analysis can systematically identify, extract, and scrutinise emotional states and subjective information in social media data. Exploring reactions and perceptions to response messaging is invaluable and proved especially useful for a pandemic response as it can demonstrate general population reaction to the pandemic and governments response actions. This can be further analysed to identify the gap between government response actions and communications and citizens' perceptions. In this paper, an analysis of Twitter data explores population reaction towards COVID-19 health messaging. A Natural Language Processing Python tool is known as TextBlob was used to discover general data sentiment. Data were divided into three sentiments and text extraction of health messages was conducted to explore subsequent tweets in predefined categories. Our findings show the outcome of Tweets analysis could help us to identify the general population concerns and their reactions to COVID-19 to give a better understanding of the situation to governments and support them in implementing appropriate policies. © 2021 IEEE.

关键词： Sentiment analysis

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