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DMFVAE:miRNA-disease associations prediction based on deep matrix factorization method with variational autoencoder

Frontiers of Computer Science 2024年第6期18卷 259-270页

作者： Pijing WEI Qianqian WANG Zhen GAO Ruifen CAO Chunhou ZHENG Information Materials and Intelligent Sensing Laboratory of Anhui Province Institutes of Physical Science and Information TechnologyAnhui UniversityHefei 230601China Key Lab of Intelligent Computing and Signal Processing of Ministry of Education School of Computer Science and TechnologyAnhui UniversityHefei 230601China Key Lab of Intelligent Computing and Signal Processing of Ministry of Education School of Artificial IntelligenceAnhui UniversityHefei 230601China

MicroRNAs(miRNAs)are closely related to numerous complex human diseases,therefore,exploring miRNA-disease associations(MDAs)can help people gain a better understanding of complex disease *** increasing number of computational methods have been developed to predict ***,the sparsity of the MDAs may hinder the performance of many *** addition,many methods fail to capture the nonlinear relationships of miRNA-disease network and inadequately leverage the features of network and neighbor *** this study,we propose a deep matrix factorization model with variational autoencoder(DMFVAE)to predict potential *** first decomposes the original association matrix and the enhanced association matrix,in which the enhanced association matrix is enhanced by self-adjusting the nearest neighbor method,to obtain sparse vectors and dense vectors,***,the variational encoder is employed to obtain the nonlinear latent vectors of miRNA and disease for the sparse vectors,and meanwhile,node2vec is used to obtain the network structure embedding vectors of miRNA and disease for the dense ***,sample features are acquired by combining the latent vectors and network structure embedding vectors,and the final prediction is implemented by convolutional neural network with channel *** evaluate the performance of DMFVAE,we conduct five-fold cross validation on the HMDD v2.0 and HMDD v3.2 datasets and the results show that DMFVAE performs ***,case studies on lung neoplasms,colon neoplasms,and esophageal neoplasms confirm the ability of DMFVAE in identifying potential miRNAs for human diseases.

关键词： miRNA-disease association deep matrix factorization self-adjusted nearest neighbor variational encoder network structure

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Degradation-Trend-Aware Deep Neural Network with Attention Mechanism for Bearing Remaining Useful Life Prediction

IEEE Transactions on Artificial Intelligence

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IEEE Transactions on Artificial intelligence 2024年第6期5卷 2997-3011页

作者： Liu, Yongkang Pan, Donghui Zhang, Haifeng Zhong, Kai Anhui University Key Laboratory of Intelligent Computing and Signal Processing of the Ministry of Education School of Mathematical Sciences Hefei230601 China Anhui University Key Laboratory of Intelligent Computing and Signal Processing of the Ministry of Education Institutes of Physical Science and Information Technology Hefei230601 China

Remaining useful life (RUL) prediction of bearings has extraordinary significance for prognostics and health management (PHM) of rotating machinery. RUL prediction approaches based on deep learning have been dedicated to finding a nonlinear mapping relationship between nonstationary monitoring data and RUL. However, most existing approaches pay little attention to the degradation trend of diverse health stages of bearing and lack the discriminative power of crucial degradation features, resulting in the loss of some important information associated with RUL. To address this challenge, this article proposes a novel RUL prediction framework based on degradation-trend-aware deep neural network with attention mechanism (DTADAN). First the multidirection features with evident degradation trend are extracted via the analysis of bearing vibration signal from both time-domain and time-frequency domain. Next, the deep neural network architecture with attention mechanism is utilized to adaptively learn the critical degradation features beneficial for RUL prediction. Distinct from the existing approaches, the proposed framework is able to dynamically extract key degradation features of the bearing including degradation trend information and effectively fuse multidirection information to improve RUL prediction accuracy. The performance of the proposed approach is evaluated via case studies on XJTU-SY bearing dataset and PRONOSTIA bearing dataset. Compared with other state-of-the-art approaches, the proposed framework has better predictive accuracy and robustness. Additionally, interpretable analysis is provided to reveal the process of model learning and data characteristics, and the analysis results are helpful in guiding model learning. © 2020 IEEE.

关键词： Deep neural networks

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Dual Averaging for Distributed Unbalanced Optimization with Delayed Information

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IEEE Transactions on signal and Information processing over Networks 2025年 11卷 366-377页

作者： Huang, Qing Fan, Yuan Cheng, Songsong Anhui University Key Laboratory of Intelligent Computing and Signal Processing of Ministry of Education School of Electrical Engineering and Automation Anhui Hefei230601 China

In this paper, we study a category of distributed constrained optimization problems where each agent has access to local information, communicates with its neighbors, and cooperatively minimizes the aggregated cost functions over time-varying unbalanced graphs. To address the considered problems, we propose a distributed dual averaging algorithm based on a row-stochastic weighted matrix (DDAR), which improves the robustness of network topology compared to conventional push-sum algorithms. Moreover, we develop a modified version of DDAR with delayed information (DDARD), which considers the delays of both network communication and gradient calculation, enhancing the algorithm's flexibility in communication and iteration. Our analysis demonstrates that the DDAR and DDARD achieve the optimal value at rates of O(N/(1-λ)√T) and O(τ2N/(1-λ}})√T}), respectively. Finally, the theoretical results are confirmed by simulation on a logistic regression problem. © 2015 IEEE.

关键词： Cost functions

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Dependable Pipeline Detection algorithms for GPRs in Obscuration Environments 7

Dependable Pipeline Detection algorithms for GPRs in Obscura...

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7th IEEE International Conference on Electronic Information and Communication Technology, ICEICT 2024

作者： Zhou, Hongyu Xu, Guanghui Li, Yingsong Huang, ZhiXiang Anhui University Key Laboratory of Intelligent Computing and Signal Processing Ministry of Education China

ISBN: (纸本)9798350384437

We propose a robust pipeline detection algorithm for obscuration environments, which includes two improvements: a pre-processing method called the Regional Adaptive Thresh-olding Algorithm (RATA) and a novel clustering method based on trend analysis and symmetric matching called as Symmetry Matching Clustering Algorithm (SMCA). This approach is highly effective in extracting targets from low-intensity regions and has been validated through simulation experiments. The gotten results demonstrate significant enhancements in the accuracy and reliability of underground pipeline detection in obscuration environments. Comparative analysis shows that, in some aspects, the proposed method outperforms existing algorithms. © 2024 IEEE.

关键词： Image enhancement

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Kernel Weibull M-Transform Least Mean Square Algorithm 12

Kernel Weibull M-Transform Least Mean Square Algorithm

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12th IEEE International Conference on Computer Science and Network Technology, ICCSNT 2024

作者： Bi, Chenchong Miao, Yongchun Li, Liping Li, Yingsong Anhui University Key Laboratory of Intelligent Computing and Signal Processing Ministry of Education China

ISBN: (纸本)9798350350791

The paper introduces a Kernel Weibull M-Transform Least-Mean Square (LMS) (KWMLMS) algorithm aimed to enhance filtering performance for a nonlinear system. By incorporating the Weibull M-Transformation into the cost function of the Kernel LMS (KLMS) algorithm, a weighting updated rule is gotten. Simulation experiments conducted for nonlinear-system identification under impulse noise conditions demonstrate that the created KWMLMS algorithm achieves significantly faster convergence compared to existing methods, indicating its superiority in dealing with impulsive-noises. © 2024 IEEE.

关键词： Wiener filtering

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Deform U-Net: Unsupervised Deformable 3D Biomedical Image Registration Network 5

Deform U-Net: Unsupervised Deformable 3D Biomedical Image Re...

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5th International Seminar on Artificial intelligence, Networking and Information Technology, AINIT 2024

作者： Yao, Yahu Lu, Rong Wu, Jun Tao, Zaiyang Qu, Lei Key Laboratory of Computational Intelligence and Signal Processing Ministry of Education Hefei China Hefei China

ISBN: (纸本)9798350385557

We can focus on the challenges posed by traditional registration algorithms and the limitations of U-Net-based architectures in capturing sufficient semantic information due to their shallow coding layers with small receptive fields. We want to explore how newer architectures or modifications to existing ones could address these limitations. Inspired by introduced deformable convolutional networks, we plan to fuse deformable convolution into our proposed network structure. Building on its success in 2D target detection, we apply deformable convolution to 3D image registration networks. The Deform U-Net proposed in this paper can compensate for the shortcomings of existing registration networks by obtaining more semantic information with unsupervised training without Introduction of additional features. We conducted evaluations on two publicly available human brain MRI, specifically LPBA40 and IBSR18. On the LPBA40 and ISBR18 datasets, the DSC reached 68.82, 62.30, respectively. The experimental results show that the Deform U-N et image registration method outperforms the VoxelMorph image registration method. © 2024 IEEE.

关键词： Convolution

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Linear Subspace Surrogate Modeling for Large-Scale Expensive Single/Multi-Objective Optimization

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IEEE Transactions on Evolutionary Computation 2023年第3期29卷 1-1页

作者： Si, Langchun Zhang, Xingyi Tian, Ye Yang, Shangshang Zhang, Limiao Jin, Yaochu School of Computer Science and Technology Key Laboratory of Intelligent Computing and Signal Processing of Ministry of Education Anhui University Hefei China School of Artificial Intelligence Key Laboratory of Intelligent Computing and Signal Processing of Ministry of Education Anhui University Hefei China Information Materials and Intelligent Sensing Laboratory of Anhui Province Anhui University Hefei China Faculty of Technology Bielefeld University Bielefeld Germany

Despite that the surrogate-assisted evolutionary algorithms have achieved great success in addressing expensive optimization problems, they still suffer from stiff challenges when the number of dimensions of problems becomes large. The primary reason lies in that it is very hard to build an acceptable surrogate model in the high-dimensional search space with small amounts of evaluated historical data in evolution. To tackle this issue, we suggest an effective surrogate modeling method for large-scale expensive optimization in this paper, where the models are built on a number of linear subspaces instead of the original search space. Specifically, a linear subspace is constructed by a pair of points/solutions which are generated based on the set of elite solutions. For each linear subspace, several historical solutions are first associated according to their distance to the linear subspace, and then a surrogate model is trained by the associated solutions and used to evaluate the offspring. To ensure the exploration and exploitation capacity of the proposed method, these linear subspaces and the surrogate models are updated after a few iterations. Experimental results on CEC’2010 and CEC’2013 single-objective optimization problems with up to 1500 decision variables show that the proposed algorithm is superior over six comparison algorithms. Moreover, we also extend the proposed algorithm to multi-objective optimization problems and verified its competitiveness on problems with up to 1500 decision variables. IEEE

关键词： Evolutionary algorithms

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Phase Retrieval System Based on Refractive Index Change 4

Phase Retrieval System Based on Refractive Index Change

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4th International Computational Imaging Conference, CITA 2024

作者： Cheng, Hong Zhang, Hongyi Wang, Li Fenzhang Li, Shuhan Key Laboratory of Intelligent Computing & Signal Processing Anhui University Anhui Province Hefei230601 China

ISBN: (纸本)9781510688834

The phase recovery method based on the Transport of Intensity Equation is widely used in the field of microscopic imaging of biological cells. When using this method for phase recovery, the CCD is always moved to acquire intensity images at different out-of-focus positions, which introduces mechanical errors, it also causes errors when using the traditional FFT method. Based on this, this paper proposes a phase recovery system based on refractive index change: firstly, an image acquisition system with a refractive index medium is built, and two intensity images with different refractive index are acquired;the intensity-phase equation based on refractive index change is established, and the "maximum intensity" assumption method is introduced to solve this equation. Then, we can obtain high-precision phase results without moving the CCD. In this paper, the feasibility and accuracy of this technique are confirmed by numerical simulation and optical experiment respectively. © 2025 SPIE.

关键词： Refractive index

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A C-band quad-cluster low-profile broadband circularly polarized antenna array based on sequentially rotating metasurface-based

A C-band quad-cluster low-profile broadband circularly polar...

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2024 International Applied Computational Electromagnetics Society Symposium, ACES-China 2024

作者： Bai, Rongxian Li, Minquan Anhui University Key Laboratory of Intelligent Computing & Signal Processing Ministry of Education Hefei230601 China

ISBN: (纸本)9798350355581

This paper proposes a metasurface-based left-handed circularly polarized (CP) sequential rotating metasurface-based (MTS) antenna array for C-band. The array comprises a cluster of 4 × 4 periodically aligned MTS cells, which exhibit excellent performance at a low profile of 0.08 λ0. The antenna array is constructed on a Rogers RO4003 dielectric board in two layers. The upper surface of the upper layer is the MTS, the floor has a gap between the upper and lower layers, and the lower surface of the lower layer is the sequential feed network. The simulation conducted in HFSS software yielded an integrated bandwidth (IBW) of 95% (3.79-8.54 GHz) and an antenna radiation bandwidth (ARBW) of 49.8% (3.77-6.26 GHz), respectively. The dimensions of the antenna are 1.33λ0 × 1.33λ0 × 0.08λ0. This configuration results in a miniaturized, compact, and low-profile antenna array. This antenna configuration is applicable to satellite communications using circularly polarized waves through MTS units. © 2024 IEEE.

关键词： Circular polarization

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The Dual-3DCRU Model Based on Hemisphere Asymmetry for EEG Emotion Recognition 5

The Dual-3DCRU Model Based on Hemisphere Asymmetry for EEG E...

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5th International Seminar on Artificial intelligence, Networking and Information Technology, AINIT 2024

作者： Dong, Hao Zhou, Jian Anhui University Key Laboratory of Intelligent Computing and Signal Processing of Ministry of Education Anhui Hefei China

ISBN: (纸本)9798350385557

In this paper, we propose an innovative multi scale model called Dual-3DCRU, designed to extract more discriminative feature from both the left and right hemispheres. Byleveraging spatial relationships of electrode locations and the distinct frequency bands present in EEG signals from brain two hemispheres regions, we reconstructed comprehensive three-dimensional frequency space fusion feature representation. The Dual-3DCRU utilizes two different multi scale 3D -CNN to effectively capture both frequency and spatial information embedded in the 3D feature representations. Furthermore, we integrate a Gated Recursive Unit (GRU) to model the temporal dynamics across continuous time periods and extract critical temporal information. Ultimately, the Dual-3DGRU model delivers a holistic feature representation that incorporates time, frequency, and spatial information seamlessly. Our experiments showcase that the Dual-3DCRU model attains exceptional performance on DEAP dataset. Specifically, the accuracy in the Valence dimensionis 94.35%, F1-score is 93.24%, accuracy in the Arousal dimensionis 95.04%, and F1-score is 94.17%. © 2024 IEEE.

关键词： Emotion Recognition

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