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A protocol for structured illumination microscopy with minimal reconstruction artifacts

Biophysics Reports 2019年第2期5卷 80-90页

作者： Junchao Fan Xiaoshuai Huang Liuju Li Shan Tan Liangyi Chen Key Laboratory of Image Processing and Intelligent Control of Ministry of Education of China School of Automation Huazhong University of Science and Technology State Key Laboratory of Membrane Biology Beijing Key Laboratory of Cardiometabolic Molecular MedicineInstitute of Molecular Medicine Peking University

The imaging rate of structured illumination microscopy(SIM) reached 188 Hz recently. As the exposure time decreases, the camera detects fewer virtual photons, while the noise level remains the same. As a result, the signal-to-noise ratio(SNR) decreases sharply. Furthermore, the SNR decreases further because of photobleaching and phototoxicity. This decreased quality of SIM raw data may lead to surprising artifacts with various causes, which may confuse a new user of SIM microscopy. We summarize three significant possible sources of severe artifacts in reconstructed super-resolution(SR)images. Ultrafast motion of a biological sample or an uneven illumination pattern is the most difficult to be identified. The estimated parameter could also be incorrect, leading to artifact of regular ***, reconstruction with the Wiener method generates stochastic artifacts due to the amplification of noise during the deconvolution process. To deal with these problems, we have established a protocol to reconstruct ultrafast SIM raw data obtained in low SNR conditions. First, we checked the quality of the raw data with the image J plugin SIMcheck before reconstruction. Then, a modified parameter estimation method was used to improve the precision of the parameters. Finally, an iterative algorithm was used for SIM reconstruction under low signal-to-noise ratio conditions. This procedure effectively suppressed the artifacts in the super-resolution images reconstructed from raw data of low signal-to-noise ratio.

关键词： Ultrafast SIM Low signal-to-noise ratio Reconstruction

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Pool-Based Unsupervised Active Learning for Regression Using Iterative Representativeness-Diversity Maximization (iRDM)

arXiv

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arXiv 2020年

作者： Liu, Ziang Jiang, Xue Luo, Hanbin Fang, Weili Liu, Jiajing Wu, Dongrui Key Laboratory of the Ministry of Education for Image Processing and Intelligent Control School of Artificial Intelligence and Automation Huazhong University of Science and Technology China School of Civil Engineering and Mechanics Huazhong University of Science and Technology China

Active learning (AL) selects the most beneficial unlabeled samples to label, and hence a better machine learning model can be trained from the same number of labeled samples. Most existing active learning for regression (ALR) approaches are supervised, which means the sampling process must use some label information, or an existing regression model. This paper considers completely unsupervised ALR, i.e., how to select the samples to label without knowing any true label information. We propose a novel unsupervised ALR approach, iterative representativeness-diversity maximization (iRDM), to optimally balance the representativeness and the diversity of the selected samples. Experiments on 12 datasets from various domains demonstrated its effectiveness. Our iRDM can be applied to both linear regression and kernel regression, and it even significantly outperforms supervised ALR when the number of labeled samples is small. Copyright © 2020, The Authors. All rights reserved.

关键词： Regression analysis

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Closer to Pre-trained Network Transfer Better

Closer to Pre-trained Network Transfer Better

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IEEE Joint International Information Technology and Artificial Intelligence Conference (ITAIC)

作者： Siyu Chen Wei Li School of Artificial Intelligence and Automation Huazhong University of Science and Technology Wuhan People’s Republic of China Image Processing and Intelligent Control Key Laboratory Education Ministry of China Wuhan People’s Republic of China

ISBN: (数字)9781728152448

ISBN: (纸本)9781728152455

In recent years, Deep Neural Network (DNN) has been widely used in the domain of computer vision, but its further development is restricted because of the lack of train samples. Fine-tuning is one of deep transfer learning methods to solve this problem. Nowadays, some existing Fine-tuning approaches assume that if the fine-tuned network could be as close to the pre-trained network as possible, the source knowledge would be fully utilized to improve the study effect. Although these approaches work pretty well, the assumptions on which they are based have not been systematically proved. Due to the complexity of DNNs, offering a reasonable and accurate explanation of the performance of the network is significant for designing new algorithms. In this paper, we design a series of experiments with or without transfer learning respectively, to characterize the relationship between network differences and network performance. The results show that there is an obvious negative correlation between them under certain circumstances. This conclusion can not only provide a more reasonable explanation for the relevant transfer learning algorithm, but also provide support and inspiration for the future work.

关键词： Knowledge engineering Correlation Transfer learning Neural networks Task analysis Information technology Knowledge transfer

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Observer-Based Robust Containment control of Multi-agent Systems With Input Saturation

Observer-Based Robust Containment Control of Multi-agent Sys...

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第三十九届中国控制会议

作者： Juan Qian Xiaoling Wang Guo-Ping Jiang Housheng Su College of Automation and College of Artificial Intelligence Nanjing University of Posts and Telecommunicationsand Jiangsu Engineering Lab for IOT Intelligent Robots(IOTRobot) School of Artificial Intelligence and Automation Image Processing and Intelligent Control Key Laboratory of Education Ministry of China Huazhong University of Science and Technology

In this paper, the robust containment control problem of the leader-following multi-agent systems with input saturation and input additive disturbance is addressed, where the followers can be informed by multiple leaders. With the help of the lowand-high gain feedback technique and the high-gain observer approach, a distributed control algorithm for each agent is firstly designed by using the observed output information, then sufficient conditions are provided to guarantee the semi-global robust containment of the system. Finally, some numerical simulations are given to verify the correctness of the theoretical results.

关键词： Containment control multi-agent system input saturation input additive disturbance

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A survey on negative transfer

arXiv

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arXiv 2020年

作者： Zhang, Wen Deng, Lingfei Zhang, Lei Wu, Dongrui the Key Laboratory of the Ministry of Education for Image Processing and Intelligent Control School of Artificial Intelligence and Automation Huazhong University of Science and Technology Wuhan430074 China the School of Microelectronics and Communication Engineering Chongqing University Chongqing400044 China

—Transfer learning (TL) utilizes data or knowledge from one or more source domains to facilitate the learning in a target domain. It is particularly useful when the target domain has very few or no labeled data, due to annotation expense, privacy concerns, etc. Unfortunately, the effectiveness of TL is not always guaranteed. Negative transfer (NT), i.e., leveraging source domain data/knowledge undesirably reduces the learning performance in the target domain, has been a long-standing and challenging problem in TL. Various approaches have been proposed in the literature to handle it. However, there does not exist a systematic survey on the formulation of NT, the factors leading to NT, and the algorithms that mitigate NT. This paper fills this gap, by first introducing the definition of NT and its factors, then reviewing about fifty representative approaches for overcoming NT, according to four categories: secure transfer, domain similarity estimation, distant transfer, and NT mitigation. NT in related fields, e.g., multi-task learning, lifelong learning, and adversarial attacks, are also discussed. Copyright © 2020, The Authors. All rights reserved.

关键词： Surveys

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A visual kinematics calibration method for manipulator based on nonlinear optimization

arXiv

引用

arXiv 2020年

作者： Peng, Gang Wang, Zhihao Yang, Jin Li, Xinde Key Laboratory of Image Processing and Intelligent Control Ministry of Education School of Artificial Intelligence and Automation Huazhong University of Science and Technology Wuhan China IEEE senior member School of Automation South East University Nanjing China

The traditional kinematic calibration method for manipulators requires precise three-dimensional measuring instruments to measure the end pose, which is not only expensive due to the high cost of the measuring instruments but also not applicable to all manipulators. Another calibration method uses a camera, but the system error caused by the camera's parameters affects the calibration accuracy of the kinematics of the robot arm. Therefore, this paper proposes a method for calibrating the geometric parameters of a kinematic model of a manipulator based on monocular vision. Firstly, the classic Denavit-Hartenberg (D-H) modeling method is used to establish the kinematic parameters of the manipulator. Secondly, nonlinear optimization and parameter compensation are performed. The three-dimensional positions of the feature points of the calibration plate under each manipulator attitude corresponding to the actual kinematic model and the classic D-H kinematic model are mapped into the pixel coordinate system, and the sum of Euclidean distance errors of the pixel coordinates of the two is used as the objective function to be optimized. The experimental results show that the pixel deviation of the end pose corresponding to the optimized D-H kinematic model proposed in this paper and the end pose corresponding to the actual kinematic model in the pixel coordinate system is 0.99 pixels. Compared with the 7.9 deviation pixels between the pixel coordinates calculated by the classic D-H kinematic model and the actual pixel coordinates, the deviation is reduced by nearly 7 pixels for an 87% reduction in error. Therefore, the proposed method can effectively avoid system errors caused by camera parameters in visual calibration, can improve the absolute positioning accuracy of the end of the robotic arm, and has good economy and universality. Copyright © 2020, The Authors. All rights reserved.

关键词： Pixels

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Transfer Learning for Motor imagery Based Brain-Computer Interfaces: A Complete Pipeline

arXiv

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arXiv 2020年

作者： Wu, Dongrui Jiang, Xue Peng, Ruimin Kong, Wanzeng Huang, Jian Zeng, Zhigang Key Laboratory of the Ministry of Education for Image Processing and Intelligent Control School of Artificial Intelligence and Automation Huazhong University of Science and Technology Wuhan430074 China Zhejiang Key Laboratory for Brain-Machine Collaborative Intelligence Hangzhou Dianzi University Hangzhou310018 China

Transfer learning (TL) has been widely used in motor imagery (MI) based brain-computer interfaces (BCIs) to reduce the calibration effort for a new subject, and demonstrated promising performance. While a closed-loop MI-based BCI system, after electroencephalogram (EEG) signal acquisition and temporal filtering, includes spatial filtering, feature engineering, and classification blocks before sending out the control signal to an external device, previous approaches only considered TL in one or two such components. This paper proposes that TL could be considered in all three components (spatial filtering, feature engineering, and classification) of MI-based BCIs. Furthermore, it is also very important to specifically add a data alignment component before spatial filtering to make the data from different subjects more consistent, and hence to facilitate subsequential TL. Offline calibration experiments on two MI datasets verified our proposal. Especially, integrating data alignment and sophisticated TL approaches can significantly improve the classification performance, and hence greatly reduces the calibration effort. Copyright © 2020, The Authors. All rights reserved.

关键词： Electroencephalography

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Parity space-based model mismatch detection for linear discrete time-invariant systems with unknown disturbances

Parity space-based model mismatch detection for linear discr...

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第三十九届中国控制会议

作者： Yi Tang Dan Ling Hong Zhang Yanewei Wang Ying Zheng the Key Laboratory of Image Processing and Intelligent Control School of Artificial Intelligence and AutomationHuazhong University of Science and Technology School of Electrical and Information Engineering Zhengzhou University of Light Industry School of Mechanical & Electrical Engineering Wuhan Institute of Technology

Model mismatch is one of the main factors of control performance degradation. In this paper, a new model mismatch detection approach with parity space-based methods is proposed for linear discrete time-invariant（LDTI） systems. This paper establishes a parity space-based residual evaluation function for the detection of model mismatch. The problem of parity space-based model mismatch is formulated on a state space model of a LDTI system. A standard evaluation function and its thresholds for the detection of model mismatch are proposed by providing the parity model-based residuals. It is shown the proposed approach results in an optimal fault detectability without any assumptions on the probability distribution of unknown disturbances. The effectiveness of the proposed methods is demonstrated by the simulation study of the paper machine head box control example.

关键词： Parity space Model mismatch detection LDTV systems model-based residual generation

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Adversarial refinement network for human motion prediction

arXiv

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arXiv 2020年

作者： Chao, Xianjin Bin, Yanrui Chu, Wenqing Cao, Xuan Ge, Yanhao Wang, Chengjie Li, Jilin Huang, Feiyue Leung, Howard City University of Hong Kong Hong Kong Hong Kong Key Laboratory of Image Processing and Intelligent Control School of Artificial Intelligence and Automation Huazhong University of Science and Technology Wuhan China Tencent Youtu Lab Shanghai China

Human motion prediction aims to predict future 3D skeletal sequences by giving a limited human motion as inputs. Two popular methods, recurrent neural networks and feed-forward deep networks, are able to predict rough motion trend, but motion details such as limb movement may be lost. To predict more accurate future human motion, we propose an Adversarial Refinement Network (ARNet) following a simple yet effective coarse-to-fine mechanism with novel adversarial error augmentation. Specifically, we take both the historical motion sequences and coarse prediction as input of our cascaded refinement network to predict refined human motion and strengthen the refinement network with adversarial error augmentation. During training, we deliberately introduce the error distribution by learning through the adversarial mechanism among different subjects. In testing, our cascaded refinement network alleviates the prediction error from the coarse predictor resulting in a finer prediction robustly. This adversarial error augmentation provides rich error cases as input to our refinement network, leading to better generalization performance on the testing dataset. We conduct extensive experiments on three standard benchmark datasets and show that our proposed ARNet outperforms other state-of-the-art methods, especially on challenging aperiodic actions in both short-term and long-term predictions. © 2020, CC-BY.

关键词： Errors

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NiuEM: A Nested-iterative Unsupervised Learning Model for Single-particle Cryo-EM image processing

NiuEM: A Nested-iterative Unsupervised Learning Model for Si...

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IEEE International Conference on Bioinformatics and Biomedicine (BIBM)

作者： Rui Hu Jiaming Cai Wangjie Zheng Yang Yang Hong-Bin Shen Shanghai Jiao Tong University and Key Laboratory of Shanghai Education Commission for Intelligent Interaction and Cognitive Engineering Shanghai China Institute of Image Processing and Pattern Recognition Shanghai Jiao Tong University and Key Laboratory of System Control and Information Processing Ministry of Education of China Shanghai China Shanghai Jiao Tong University Shanghai China

ISBN: (数字)9781728162157

ISBN: (纸本)9781728162164

Cryo-electron microscopy (cryo-EM) has become a mainstream technology for solving spatial structures of biomacromolecules, while the processing of cryo-EM images is a very challenging task. One of the great challenges is the high noise in the images. A common method is to cluster the images with close projecting angles to get mean images, which are used for 3D reconstruction. However, due to the extremely low signal-to-noise-ratio, common clustering methods often fail to obtain high-quality mean images, leading to poorly reconstructed structures. In this study, we present a new unsupervised learning framework, called NiuEM, to discriminate images captured from different angles and yield cluster-mean images. NiuEM first generates pseudo-labels and then exploits both contrastive loss and cross-entropy loss for training convolutional layers to learn feature representations. Moreover, the pseudo-labels are updated iteratively to enhance the reliability of labels. We assess the performance of NiuEM on four data sets via both visualized and quantitative experiments. Especially, two kinds of metrics are adopted to measure the performance, regarding the clustering quality and the resolution of reconstructed 3D models, respectively. The experimental results show that NiuEM achieves very competitive clustering accuracy in the comparison with the state-of-the-art image clustering methods. Moreover, the cluster mean images yielded by NiuEM lead to better initial 3D models compared with the mainstream reconstruction tools.

关键词： Three-dimensional displays Feature extraction image reconstruction Task analysis Solid modeling Electron microscopy Convolutional neural networks

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