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19th International Conference on Advanced Data Mining and Applications, ADMA 2023

作者： Zhang, Kai Liang, Wei Cao, Peng Yang, Jinzhu Li, Weiping Zaiane, Osmar R. Computer Science and Engineering Northeastern University Shenyang China Key Laboratory of Intelligent Computing in Medical Image of Ministry of Education Northeastern University Shenyang China National Frontiers Science Center for Industrial Intelligence and Systems Optimization Shenyang110819 China School of Software and Microelectronics Peking University Beijing China Alberta Machine Intelligence Institute University of Alberta EdmontonAB Canada

ISBN: (纸本)9783031466731

Multi-label learning has received much attention due to its wide range of application domains. Multi-label data often has high-dimensional features, which brings more challenges to classification algorithms. Feature selection based on sparse learning is one of the most important approaches, which can select discriminative features to alleviate the curse of dimensionality. However, most of these methods do not consider feature redundancy and label correlation simultaneously. In this work, we propose a multi-label feature selection method that takes feature redundancy and label correlation into account. Specifically, the proposed method first divides features into groups according to feature correlation and then encourages competition within each group but relaxes competition between groups to eliminate redundant and irrelevant features. Moreover, we propose an approach to capture label correlation and exploit it to improve the feature selection. Finally, an iterative optimization algorithm is designed to obtain the feature weights for multi-label feature selection. Extensive experiments on various multi-label datasets demonstrate the superiority of the proposed method compared with some state-of-the-art multi-label feature selection methods. © The Author(s), under exclusive license to Springer Nature Switzerland AG 2023.

关键词： Feature Selection

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FireANTs: Adaptive Riemannian Optimization for Multi-Scale Diffeomorphic Matching

arXiv

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arXiv 2024年

作者： Jena, Rohit Chaudhari, Pratik Gee, James C. Computer and Information Science University of Pennsylvania United States Electrical and Systems Engineering University of Pennsylvania United States Radiology Perelman School of Medicine University of Pennsylvania United States Penn Image Computing and Science Laboratory University of Pennsylvania United States

The paper proposes FireANTs, the first multi-scale Adaptive Riemannian Optimization algorithm for dense diffeomorphic image matching. One of the most critical and understudied aspects of diffeomorphic image matching algorithms are its highly ill-conditioned nature. We quantitatively capture the extent of ill-conditioning in a typical MRI matching task, motivating the need for an adaptive optimization algorithm for diffeomorphic matching. To this end, FireANTs generalizes the concept of momentum and adaptive estimates of the Hessian to mitigate this ill-conditioning in the non-Euclidean space of diffeomorphisms. Unlike common non-Euclidean manifolds, we also formalize considerations for multi-scale optimization of diffeomorphisms. Our rigorous mathematical results and operational contributions lead to a state-of-the-art dense matching algorithm that can be applied to generic image data with remarkable accuracy and robustness. We demonstrate consistent improvements in image matching performance across a spectrum of community-standard medical and biological correspondence matching challenges spanning a wide variety of image modalities, anatomies, resolutions, acquisition protocols, and preprocessing pipelines. This improvement is supplemented by from 300× up to 3200× speedup over existing state-of-the-art algorithms. For the first time, we perform diffeomorphic matching of sub-micron mouse cortex volumes at native resolution. Our fast implementation also enables hyperparameter studies that were intractable with existing correspondence matching algorithms. © 2024, CC BY.

关键词： Neuroimaging

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BECNN: Bias Field Estimation CNN Trained with a Dual Route Implicit Supervised Learning Strategy

BECNN: Bias Field Estimation CNN Trained with a Dual Route I...

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IEEE International Conference on Bioinformatics and Biomedicine (BIBM)

作者： Shuaizheng Chen Chaolu Feng Wei Li Jinzhu Yang Dazhe Zhao School of Computer Science And Engineering Northeastern University Shenyang China Key Laboratory of Intelligent Computing in Medical Image Ministry of Education Northeastern University Shenyang China National Frontiers Science Center for Industrial Intelligence and Systems Optimization Northeastern University Shenyang China

ISBN: (数字)9798350386226

ISBN: (纸本)9798350386233

Bias fields adversely affect various automatic analysis technologies. Therefore, bias field correction is essential. However, deep learning based methods encounter challenges in obtaining ground truth. Although existing methods attempt to address this problem by using training-free techniques or constructing datasets with approximations of the ground truth, the lack of task-oriented guidance, training instability, and inappropriate use of approximations still impact performance. Additionally, different approaches for bias field correction, i.e., estimating bias fields versus directly restoring clean images, exhibit different performances. However, there is no consensus on the best way, resulting in limited performance in some cases. To address these problems, we propose a bias field generation method to construct the dataset and provide task-oriented information. We then propose the concept of Equivalent of Residual Mapping (ERM) to analyze the advantages of estimating bias fields. According to ERM, we propose the Bias field Estimation Convolutional Neural Network (BECNN). Finally, we propose the Dual Route Implicit Supervised Learning (DRISL) strategy to balance the guidance derived from approximations of the ground truth with over-dependence on them. The proposed method is compared qualitatively and quantitatively with the correlated methods. Experiment results demonstrate that the proposed method performs effectively both on bias field estimation and correction.

关键词： Training Measurement Deep learning image resolution Computational modeling Supervised learning Estimation image restoration Computational efficiency Convolutional neural networks

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Application of graph-curvature features in computer-aided diagnosis for histopathological image identification of gastric cancer

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Intelligent Medicine 2024年第3期4卷 141-152页

作者： Ruilin He Chen Li Xinyi Yang Jinzhu Yang Tao Jiang Marcin Grzegorzek Hongzan Sun Microscopic Image and Medical Image Analysis Group College of Medicine and Biological Information EngineeringNortheastern UniversityShenyangLiaoning 110016China Key Laboratory of Intelligent Computing in Medical Image Ministry of EducationNortheastern UniversityShenyangLiaoning 110016China School of Intelligent Medicine Chengdu University of Traditional Chinese MedicineChengduSichuan 610075China International Joint Institute of Robotics and Intelligent Systems Chengdu University of Information TechnologyChengduSichuan 610225China Institute for Medical Informatics University of LuebeckLuebeckGermany Department of Knowledge Engineering University of Economics in KatowiceKatowicePoland Shengjing Hospital of China Medical University ShenyangLiaoning 110136China

Background Histopathology diagnosis is often regarded as the final diagnostic method for malignant tumors;however,it has some *** study explored a computer-aided diagnostic method that can be used to identify benign and malignant gastric cancer using histopathological *** The most suitable process was selected through multiple experiments by comparing multiple meth-ods and features for ***,the U-net was applied to segment the ***,the nucleus was extracted from the segmented image,and the minimum spanning tree(MST)diagram structure that can cap-ture the topological information was *** third step was to extract the graph-curvature features of the histopathological image according to the MST ***,by inputting the graph-curvature features into the classifier,the recognition results for benign or malignant cancer can be *** During the experiment,we used various methods for *** the image segmentation stage,U-net,watershed algorithm,and Otsu threshold segmentation methods were *** found that the U-net method,combined with multiple indicators,was the most suitable for segmentation of histopathological *** the feature extraction stage,in addition to extracting graph-edge and graph-curvature features,several basic im-age features were extracted,including the red,green and blue feature,gray-level co-occurrence matrix feature,histogram of oriented gradient feature,and local binary pattern *** the classifier design stage,we exper-imented with various methods,such as support vector machine(SVM),random forest,artificial neural network,K nearest neighbors,VGG-16,and *** comparison and analysis,it was found that classifica-tion results with an accuracy of 98.57%can be obtained by inputting the graph-curvature feature into the SVM classifier.

关键词： Gastric cancer Graph-curvature feature image identification

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Difference in Uptake Pattern Heterogeneity and Reproducibility of Radiomics Features Between FAPI and FDG Pet/Ct Imaging of Tumors

Difference in Uptake Pattern Heterogeneity and Reproducibili...

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IEEE International Symposium on Biomedical Imaging

作者： Tianmeng Xu Yanchao Huang Tingting Ang Shuilin Chu Peiyin Luo Shunfang Wang Yufeng Zhang Lijun Lu Ganghua Tang Wenbing Lv School of Information and Yunnan Key Laboratory of Intelligent Systems and Computing Yunnan University Kunming China Department of Nuclear Medicine Laboratory for Quality Control and Evaluation of Radiopharmaceuticals Nanfang Hospital Southern Medical University Guangzhou China School of Biomedical Engineering and Guangdong Provincial Key Laboratory of Medical Image Processing Southern Medical University Guangzhou China

ISBN: (数字)9798350313338

ISBN: (纸本)9798350313345

To investigate the difference in uptake pattern heterogeneity between fluorodeoxyglucose (FDG) and fibroblast activation protein inhibitor (FAPI) PET/CT and the reproducibility of radiomics features with respect to different calculation methods of standardized uptake value (SUV). 210 patients with various tumors were involved. Among the extracted 497 radiomics features, there are only 20 features that exhibited an ICC difference of more than 0.25 between the two tracers when using different SUV calculation methods, revealing the similar influence of SUV calculation methods. In contrast, the ICC values for most texture features were generally lower (0.22-0.39) between FDG and FAPI PET images, indicating a large difference in uptake pattern heterogeneity between the two tracers. Our results demonstrated that the influence of SUV calculation methods on the reproducibility of FDG and FAPI PET features is similar. The uptake pattern heterogeneity characterized by radiomics features between FDG and FAPI PET images is significantly different.

关键词： Proteins Protein engineering Inhibitors Fibroblasts Feature extraction Reproducibility of results Radiomics

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Uncertainty Quantification and Quality Control for Heatmap-based Landmark Detection Models

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IEEE Transactions on Medical Imaging 2025年

作者： Feng, Yong Yang, Jinzhu Tang, Lingzhi Sun, Song Wang, Yonghuai Northeastern University Key Laboratory of Intelligent Computing in Medical Image Ministry of Education Shenyang China Northeastern University School of Computer Science and Engineering Shenyang China National Frontiers Science Center for Industrial Intelligence and Systems Optimization Shenyang China The First Hospital of China Medical University Department of Cardiovascular Ultrasound Shenyang China

Uncertainty quantification is a vital aspect of explainable artificial intelligence that fosters clinician trust in medical applications and facilitates timely interventions, leading to safer and more reliable outcomes. Although deep learning models have reached clinically acceptable accuracy in anatomical landmark detection, their predictions remain susceptible to contextual noise due to the small size of the target structures, making uncertainty quantification more challenging than in classification and segmentation tasks. This paper presents an end-to-end uncertainty quantification method tailored for heatmapbased anatomical landmark detection models, designed to improve both interpretability and controllability in clinical applications. Leveraging Dempster-Shafer Theory and Subjective Logic Theory, we implement probability assignment and uncertainty quantification through a single forward pass to ensure computational efficiency. We introduce an evidence map that captures the strength of landmark evidence, alongside an uncertainty map that calibrates predicted probabilities within the Subjective Logic framework. The interaction between these two components, facilitated by a cross-attention mechanism, further improves landmark detection accuracy and enhances the effectiveness of uncertainty quantification. Experimental results demonstrate that the proposed method maintains detection accuracy, even in noisy environments, while outperforming state-of-the-art methods in terms of uncertainty quantification and quality control. Furthermore, the model effectively identifies out-of-distribution data solely through calibrated probabilities when encountering inconsistencies in multi-center data and novel data, underscoring its potential for clinical applications. © 1982-2012 IEEE.

关键词： Model predictive control

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What will regularized continuous learning performs if it was used to medical image segmentation: a preliminary analysis

What will regularized continuous learning performs if it was...

引用

IEEE International Conference on Bioinformatics and Biomedicine (BIBM)

作者： Weihao Dai Chaolu Feng Shuaizheng Chen Wei Li Jinzhu Yang Dazhe Zhao College of Computer Science and Engineering Northeastern University Shenyang China Key Laboratory of Intelligent Computing in Medical Image (MIIC) Ministry of Education Shenyang China National Frontiers Science Center for Industrial Intelligence and Systems Optimization Shenyang China

Regularization-based continuous learning (RCL) has been proven to be highly effective on struggling against catastrophic forgetting. However, its application in medical image segmentation (MIS) is relatively scarce. In this paper, we provide a unified description of 6 RCL methods (LwF, LwM, EWC, SI, MAS, and PIGWM) using Taylor expansion and investigate their performances in 2 classic MIS scenarios, namely retinal vessel segmentation (RVS) and cardiac left ventricle segmentation (CLVS) on 8 datasets (CHASE, DRHAGIS, RITE and STARE for the former and M&Ms, LVSC, ACDC and SCD for the latter). We also explore the influence of different task orders (easy to hard or hard to easy), optimizers (Adam or SGD), and parameter capacities (2, 3, 4 or 5 down- and up-sampling pairs) on the performance of these methods. Our experimental results show that these methods are capable of mitigating catastrophic forgetting to a certain extent. Comparing to a hard-to-easy order, most of the methods perform better on all of the already known tasks in an easy-to-hard order. Optimizer Adam performs better on RVS and CLVS. Capacity increases are obviously effective for CLVS, but they have no significant impact on RVS.

关键词：

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Multi-residual 2D network integrating spatial correlation for whole heart segmentation

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Computers in Biology and Medicine 2024年 172卷 108261-108261页

作者： Huang, Yan Yang, Jinzhu Sun, Qi Yuan, Yuliang Li, Honghe Hou, Yang Key Laboratory of Intelligent Computing in Medical Image Ministry of Education Northeastern University Liaoning Shenyang China School of Computer Science and Engineering Northeastern University Liaoning Shenyang China National Frontiers Science Center for Industrial Intelligence and Systems Optimization Liaoning Shenyang China Department of Radiology Shengjing Hospital of China Medical University Liaoning Shenyang China

Whole heart segmentation (WHS) has significant clinical value for cardiac anatomy, modeling, and analysis of cardiac function. This study aims to address the WHS accuracy on cardiac CT images, as well as the fast inference speed and low graphics processing unit (GPU) memory consumption required by practical clinical applications. Thus, we propose a multi-residual two-dimensional (2D) network integrating spatial correlation for WHS. The network performs slice-by-slice segmentation on three-dimensional cardiac CT images in a 2D encoder–decoder manner. In the network, a convolutional long short-term memory skip connection module is designed to perform spatial correlation feature extraction on the feature maps at different resolutions extracted by the sub-modules of the pre-trained ResNet-based encoder. Moreover, a decoder based on the multi-residual module is designed to analyze the extracted features from the perspectives of multi-scale and channel attention, thereby accurately delineating the various substructures of the heart. The proposed method is verified on a dataset of the multi-modality WHS challenge, an in-house WHS dataset, and a dataset of the abdominal organ segmentation challenge. The dice, Jaccard, average symmetric surface distance, Hausdorff distance, inference time, and maximum GPU memory of the WHS are 0.914, 0.843, 1.066 mm, 15.778 mm, 9.535 s, and 1905 MB, respectively. The proposed network has high accuracy, fast inference speed, minimal GPU memory consumption, strong robustness, and good generalization. It can be deployed to clinical practical applications for WHS and can be effectively extended and applied to other multi-organ segmentation fields. The source code is publicly available at https://***/nancy1984yan/MultiResNet-SC. © 2024 Elsevier Ltd

关键词： Graphics processing unit

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Self-Paced Sample Selection for Barely-Supervised Medical image Segmentation

arXiv

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arXiv 2024年

作者： Su, Junming Shen, Zhiqiang Cao, Peng Yang, Jinzhu Zaiane, Osmar R. Computer Science and Engineering Northeastern University Shenyang China Key Laboratory of Intelligent Computing in Medical Image Ministry of Education Northeastern University Shenyang China National Frontiers Science Center for Industrial Intelligence and Systems Optimization Shenyang China Alberta Machine Intelligence Institute University of Alberta Edmonton Canada

The existing barely-supervised medical image segmentation (BSS) methods, adopting a registration-segmentation paradigm, aim to learn from data with very few annotations to mitigate the extreme label scarcity problem. However, this paradigm poses a challenge: pseudo-labels generated by image registration come with significant noise. To address this issue, we propose a self-paced sample selection framework (SPSS) for BSS. Specifically, SPSS comprises two main components: 1) self-paced uncertainty sample selection (SU) for explicitly improving the quality of pseudo labels in the image space, and 2) self-paced bidirectional feature contrastive learning (SC) for implicitly improving the quality of pseudo labels through enhancing the separability between class semantics in the feature space. Both SU and SC are trained collaboratively in a self-paced learning manner, ensuring that SPSS can learn from high-quality pseudo labels for BSS. Extensive experiments on two public medical image segmentation datasets demonstrate the effectiveness and superiority of SPSS over the state-of-the-art. Our code is release at https://***/SuuuJM/SPSS. Copyright © 2024, The Authors. All rights reserved.

关键词： image enhancement

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Few-Shot Small Vessel Segmentation Using a Detail-Preserving Network Enhanced by Discriminator

SSRN

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SSRN 2024年

作者： Huang, Yan Yang, Jinzhu Sun, Qi Yuan, Yuliang Hou, Yang Shang, Jin Key Laboratory of Intelligent Computing in Medical Image Ministry of Education Northeastern University Liaoning Shenyang China School of Computer Science and Engineering Northeastern University Liaoning Shenyang China National Frontiers Science Center for Industrial Intelligence and Systems Optimization Liaoning Shenyang China Department of Radiology Shengjing Hospital of China Medical University Liaoning Shenyang China

Accurate segmentation of small vessels, such as coronary and pulmonary arteries, is crucial for early detection and treatment of vascular diseases. However, challenges persist due to the vessel's small size, complex structures, morphological variations, and limited annotated data. To address these challenges, we propose a detail-preserving network enhanced by a discriminator to improve the few-shot small vessel segmentation performance. The detail-preserving network constructs a complex module with multi-residual hybrid dilated convolution, which can enhance the network's receptive field while preserving the image's full detail features, enabling it to better capture the small vessel's structural features. Simultaneously, discriminator enhancement is incorporated into the training process through adversarial learning, effectively utilizing large amounts of unlabeled data to boost the generalization and robustness of the segmentation model. We validate the proposed method on in-house and public coronary artery datasets and public pulmonary artery datasets. Experimental results demonstrate that the proposed method significantly improves segmentation accuracy, particularly for small vessels. Compared with other state-of-the-art methods, the proposed method achieves higher accuracy, a lower false positive rate, and superior generalization capability, effectively assisting the clinical diagnosis of vessel diseases. © 2024, The Authors. All rights reserved.

关键词： Semi-supervised learning

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