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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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Non-uniform Compressive Sensing Imaging Based on Image Saliency

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Chinese Journal of Electronics 2023年第1期32卷 159-165页

作者： LI Hongliang DAI Feng ZHAO Qiang MA Yike CAO Juan ZHANG Yongdong University of Chinese Academy of Sciences Key Lab of Intelligent Information Processing of Chinese Academy of Sciences Institute of Computing Technology Chinese Academy of Sciences University of Science and Technology of China

For more effective image sampling, compressive sensing(CS) imaging methods based on image saliency have been proposed in recent years. Those methods assign higher measurement rates to salient regions,but lower measurement rate to non-salient regions to improve the performance of CS imaging. However, those methods are block-based, which are difficult to apply to actual CS sampling, as each photodiode should strictly correspond to a block of the scene. In our work, we propose a non-uniform CS imaging method based on image saliency, which assigns higher measurement density to salient regions and lower density to non-salient regions,where measurement density is the number of pixels measured in a unit size. As the dimension of the signal is reduced, the quality of reconstructed image will be improved theoretically, which is confirmed by our experiments. Since the scene is sampled as a whole, our method can be easily applied to actual CS sampling. To verify the feasibility of our approach, we design and implement a hardware sampling system, which can apply our non-uniform sampling method to obtain measurements and reconstruct the images. To our best knowledge, this is the first CS hardware sampling system based on image saliency.

关键词： Measurement units Density measurement Imaging Image sampling Size measurement Hardware Sensors

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Audio-guided self-supervised learning for disentangled visual speech representations

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Frontiers of Computer Science 2024年第6期18卷 277-279页

作者： Dalu FENG Shuang YANG Shiguang SHAN Xilin CHEN Key Laboratory of Intelligent Information Processing of Chinese Academy of Sciences Institute of Computing TechnologyChinese Academy of SciencesBeijing 100190China University of Chinese Academy of Sciences Beijing 100049China

1 *** visual speech representations from talking face videos is an important problem for several speech-related tasks,such as lip reading,talking face generation,and audiovisual speech separation[1,2].The key difficulty lies in tackling speech-irrelevant factors presented in the videos,such as lighting,resolution,viewpoints,and head motion.

关键词： such dis visual

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Leveraging Slot-Aware Enhancements for Improved Zero-Shot Dialogue State Tracking 6

Leveraging Slot-Aware Enhancements for Improved Zero-Shot Di...

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6th International Conference on Frontier Technologies of information and Computer, ICFTIC 2024

作者： Song, Tianhang Hu, Haolei Chen, Xinxin Zi, Kangli Henan Institute of Advanced Technology Zhengzhou University Zhengzhou China Institute of Computing Technology Key Laboratory of Intelligent Information Processing Beijing China

ISBN: (纸本)9798331541750

Task-oriented dialogue systems (TOD) aim to help users complete specific tasks through multiple rounds of dialogue, in which Dialogue State Tracking (DST) is a key component. The training of DST models typically necessitates the availab.lity of a substantial corpus of dialogue data with turn-level annotations. However, the collection of such data is both costly and inefficient. Despite the impressive performance of systems based on advanced large language models (LLMs), their closed-source nature restricts the potential for local deployment. To address this challenge, this paper proposes a new zero-shot slot-aware enhanced model (SAE), which introduces a novel coded prompting framework to enhance the DST capability of small parameter models in new domains and task scenarios. In particular, we have devised a prompting framework that employs code to refine task instructions. Furthermore, we have proposed a slot-aware question generation mechanism that generates slot-aware questions based on contextual details in accordance with the dialogue context, thereby enhancing the model's perception and matching capabilities for slots. In order to verify the effectiveness of the model, we conducted experiments on the MultiWOZ dataset. The results show that the SAE model has achieved significant performance improvements in zero-shot DST tasks. © 2024 IEEE.

关键词： Zero-shot learning

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Relation Reconstructive Binarization of word embeddings

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Frontiers of Computer Science 2022年第2期16卷 47-54页

作者： Feiyang PAN Shuokai LI Xiang AO Qing HE Key Lab of Intelligent Information Processing of Chinese Academy of Sciences(CAS) Institute of Computing TechnologyCASBeijing 100190China University of Chinese Academy of Sciences Beijing 100049China

Word-embedding acts as one of the backbones of modern natural language processing(NLP).Recently,with the need for deploying NLP models to low-resource devices,there has been a surge of interest to compress word embeddings into hash codes or binary vectors so as to save the storage and memory ***,existing work learns to encode an embedding into a compressed representation from which the original embedding can be *** these methods aim to preserve most information of every individual word,they often fail to retain the relation between words,thus can yield large loss on certain *** this end,this paper presents Relation Reconstructive Binarization(R2B)to transform word embeddings into binary codes that can preserve the relation between *** its heart,R2B trains an auto-encoder to generate binary codes that allow reconstructing the wordby-word relations in the original embedding *** showed that our method achieved significant improvements over previous methods on a number of tasks along with a space-saving of up to 98.4%.Specifically,our method reached even better results on word similarity evaluation than the uncompressed pre-trained embeddings,and was significantly better than previous compression methods that do not consider word relations.

关键词： embedding compression variational auto-encoder binary word embedding

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From Static to Dynamic: Adapting Landmark-Aware Image Models for Facial Expression Recognition in Videos

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IEEE Transactions on Affective computing 2024年第2期16卷 624-638页

作者： Chen, Yin Li, Jia Shan, Shiguang Wang, Meng Hong, Richang Hefei University of Technology School of Computer Science and Information Engineering Hefei230601 China Institute of Computing Technology Chinese Academy of Sciences Key Laboratory of Intelligent Information Processing Beijing100190 China University of Chinese Academy of Sciences Beijing100049 China

Dynamic facial expression recognition (DFER) in the wild is still hindered by data limitations, e.g., insufficient quantity and diversity of pose, occlusion and illumination, as well as the inherent ambiguity of facial expressions. In contrast, static facial expression recognition (SFER) currently shows much higher performance and can benefit from more abundant high-quality training data. Moreover, the appearance features and dynamic dependencies of DFER remain largely unexplored. Recognizing the potential in leveraging SFER knowledge for DFER, we introduce a novel Static-to-Dynamic model (S2D) that leverages existing SFER knowledge and dynamic information implicitly encoded in extracted facial landmark-aware features, thereby significantly improving DFER performance. Firstly, we build and train an image model for SFER, which incorporates a standard Vision Transformer (ViT) and Multi-View Complementary Prompters (MCPs) only. Then, we obtain our video model (i.e., S2D), for DFER, by inserting Temporal-Modeling Adapters (TMAs) into the image model. MCPs enhance facial expression features with landmark-aware features inferred by an off-the-shelf facial landmark detector. And the TMAs capture and model the relationships of dynamic changes in facial expressions, effectively extending the pre-trained image model for videos. Notably, MCPs and TMAs only increase a fraction of trainable parameters (less than +10%) to the original image model. Moreover, we present a novel Emotion-Anchors (i.e., reference samples for each emotion category) based Self-Distillation Loss to reduce the detrimental influence of ambiguous emotion lab.ls, further enhancing our S2D. Experiments conducted on popular SFER and DFER datasets show that we have achieved a new state of the art. © 2010-2012 IEEE.

关键词： Face recognition

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Exploring Trial-and-Error in Deep Learning:Initial Application to Isotope Detection in Mass Spectrometry

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Big Data Mining and Analytics 2024年第4期7卷 1251-1261页

作者： Qihong Jiao Yuxiao Wang Yongshuai Wang Shiwei Sun Xuefeng Cui School of Computer Science and Technology Shandong UniversityQingdao 266237China Key Lab of Intelligent Information Processing Institute of Computing TechnologyChinese Academy of SciencesBeijing 100190China

Mass spectrometry plays a crucial role in biomedicine by detecting isotopes,contributing significantly to research,diagnostics,and therapy *** study introduces IsoFusion,a deep learning model designed to address isotope detection in raw mass *** than directly applying convolutional layers to all signal and noise peaks,IsoFusion employs a trial-and-error ***,it investigates all potential charge states(trials)and collects signal peaks around expected m/z values for each ***,convolutional layers extract features from each trial,which are fused to identify the correct ***,the reparameterization trick predicts isotope features based on this correct trial.A key advantage of IsoFusion is shared model parameters across all trials,enhancing feature learning for less common charge states using data from prevalent *** results show a significant accuracy improvement for charge state 5,reaching 99.42%,compared to DeepIso’s 43.36%.Moreover,IsoFusion achieves a 97.33%detection accuracy for isotopes,with 2.4%of detected isotopes previously unidentified by four commonly used methods.

关键词： Liquid Chromatography-Mass Spectrometry(LC-MS) isotope detection retention time prediction charge state prediction deep learning

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DragEntity:Trajectory Guided Video Generation using Entity and Positional Relationships 24

DragEntity:Trajectory Guided Video Generation using Entity a...

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32nd ACM International Conference on Multimedia, MM 2024

作者： Wan, Zhang Tang, Sheng Wei, Jiawei Zhang, Ruize Cao, Juan Institute of Computing Technology Chinese Academy of Sciences Beijing China University of Chinese Academy of Sciences Beijing China Zhengzhou University Zhengzhou China Key Lab of Intelligent Information Processing Institute of Computing Technology Chinese Academy of Sciences China

ISBN: (纸本)9798400706868

In recent years, diffusion models have achieved tremendous success in the field of video generation, with controllab.e video generation receiving significant attention. However, existing control methods still face two limitations: Firstly, control conditions (such as depth maps, 3D Mesh) are difficult for ordinary users to obtain directly. Secondly, it's challenging to drive multiple objects through complex motions with multiple trajectories simultaneously. In this paper, we introduce DragEntity, a video generation model that utilizes entity representation for controlling the motion of multiple objects. Compared to previous methods, DragEntity offers two main advantages: 1) Our method is more user-friendly for interaction because it allows users to drag entities within the image rather than individual pixels. 2) We use entity representation to represent any object in the image, and multiple objects can maintain relative spatial relationships. Therefore, we allow multiple trajectories to control multiple objects in the image with different levels of complexity simultaneously. Our experiments validate the effectiveness of DragEntity, demonstrating its excellent performance in fine-grained control in video generation. © 2024 ACM.

关键词： controllab.e video generation

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A prompt-based approach to adversarial example generation and robustness enhancement

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Frontiers of Computer Science 2024年第4期18卷 85-96页

作者： Yuting YANG Pei HUANG Juan CAO Jintao LI Yun LIN Feifei MA Key Lab of Intelligent Information Processing of Chinese Academy of Sciences(CAS) Institute of Computing TechnologyCASBeijing 100190China School of Computer Science and Technology University of Chinese Academy of SciencesBeijing 100049China Department of Computer Science Stanford UniversityCA 94305USA School of Computing National University of SingaporeSingapore 119077Singapore Laboratory of Parallel Software and Computational Science Institute of SoftwareChinese Academy of SciencesBeijing 100190China

Recent years have seen the wide application of natural language processing(NLP)models in crucial areas such as finance,medical treatment,and news media,raising concerns about the model robustness and *** find that prompt paradigm can probe special robust defects of pre-trained language *** prompt texts are first constructed for inputs and a pre-trained language model can generate adversarial examples for victim models via *** results show that prompt paradigm can efficiently generate more diverse adversarial examples besides synonym ***,we propose a novel robust training approach based on prompt paradigm which incorporates prompt texts as the alternatives to adversarial examples and enhances robustness under a lightweight minimax-style optimization *** on three real-world tasks and two deep neural models show that our approach can significantly improve the robustness of models to resist adversarial attacks.

关键词： robustness adversarial example prompt learning pre-trained language model

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Multi-View Graph Embedding Learning for Image Co-Segmentation and Co-Localization

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IEEE Transactions on Circuits and Systems for Video technology 2024年第6期34卷 4942-4956页

作者： Huang, Aiping Li, Lijian Zhang, Le Niu, Yuzhen Zhao, Tiesong Lin, Chia-Wen Fuzhou University Fujian Key Laboratory for Intelligent Processing and Wireless Transmission of Media Information College of Physics and Information Engineering Fuzhou350108 China Fuzhou University Fujian Key Laboratory of Network Computing and Intelligent Information Processing College of Computer and Data Science Fuzhou350108 China University of Electronic Science and Technology of China School of Information and Communication Engineering Chengdu611731 China Fuzhou University Fujian Key Laboratory for Intelligent Processing and Wireless Transmission of Media Information College of Physics and Information Engineering The Fujian Science and Technology Innovation Laboratory for Optoelectronic Information Fuzhou350108 China Institute of Communications Engineering National Tsing Hua University Department of Electrical Engineering Hsinchu30013 Taiwan

Image co-segmentation and co-localization exploit inter-image information to identify and extract foreground objects with a batch mode. However, they remain challenging when confronted with large object variations or complex backgrounds. This paper proposes a multi-view graph embedding (MV-Gem) learning scheme which integrates diversity, robustness and discernibility of object features to alleviate this phenomenon. To encourage the diversity, the deep co-information containing both low-layer general representations and high-layer semantic information is generated to form a multi-view feature pool for comprehensive co-object description. To enhance the robustness, a multi-view adaptive weighted learning is formulated to fuse the deep co-information for feature complementation. To ensure the discernibility, the graph embedding and sparse constraint are embedded into the fusion formulation for feature selection. The former aims to inherit important structures from multiple views, and the latter further selects important features to restrain irrelevant backgrounds. With these techniques, MV-Gem gradually recovers all co-objects through optimization iterations. Extensive experimental results on real-world datasets demonstrate that MV-Gem is capable of locating and delineating co-objects in an image group. © 1991-2012 IEEE.

关键词： Semantics

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