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Application of transfer learning and ensemble learning in image-level classification for breast histopathology 迁移学习和集成学习在乳腺组织病理学图像级分类中的应用
Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2023-05-01 DOI: 10.1016/j.imed.2022.05.004
Yuchao Zheng , Chen Li , Xiaomin Zhou , Haoyuan Chen , Hao Xu , Yixin Li , Haiqing Zhang , Xiaoyan Li , Hongzan Sun , Xinyu Huang , Marcin Grzegorzek

Background

Breast cancer has the highest prevalence among all cancers in women globally. The classification of histopathological images in the diagnosis of breast cancers is an area of clinical concern. In computer-aided diagnosis, most traditional classification models use a single network to extract features, although this approach has significant limitations. Moreover, many networks are trained and optimized on patient-level datasets, ignoring lower-level data labels.

Methods

This paper proposed a deep ensemble model based on image-level labels for the binary classification of breast histopathological images of benign and malignant lesions. First, the BreaKHis dataset was randomly divided into training, validation, and test sets. Then, data augmentation techniques were used to balance the numbers of benign and malignant samples. Third, based on their transfer learning performance and the complementarity between networks, VGG16, Xception, ResNet50, and DenseNet201 were selected as base classifiers.

Results

In a ensemble network model with accuracy as the weight, the image-level binary classification achieved an accuracy of 98.90%. To verify the capabilities of our method, it was experimentally compared with the latest transformer and multilayer perception (MLP) models on the same dataset. Our ensemble model showed a 5%20% advantage, emphasizing its far-reaching abilities in classification tasks.

Conclusions

This research focuses on improving the performance of a classification model with an ensemble algorithm. Transfer learning has an essential role in classification of small datasets, improving training speed and accuracy. Our model may outperform many existing approaches with respect to accuracy and has applications in the field of auxiliary medical diagnosis.

背景癌症在全球女性癌症中的发病率最高。乳腺癌诊断中组织病理学图像的分类是临床关注的一个领域。在计算机辅助诊断中,大多数传统的分类模型使用单个网络来提取特征,尽管这种方法有很大的局限性。此外,许多网络在患者级数据集上进行训练和优化,忽略了较低级别的数据标签。方法提出了一种基于图像水平标签的深度集成模型,用于乳腺良恶性病变组织病理学图像的二元分类。首先,将BreaKHis数据集随机分为训练集、验证集和测试集。然后,使用数据增强技术来平衡良性和恶性样本的数量。第三,基于它们的迁移学习性能和网络之间的互补性,选择VGG16、Xception、ResNet50和DenseNet201作为基础分类器。结果在以精度为权重的集成网络模型中,图像级二值分类的精度达到98.90%。为了验证我们的方法的能力,在同一数据集上将其与最新的transformer和多层感知(MLP)模型进行了实验比较。我们的集成模型显示出5%-20%的优势,强调了其在分类任务中的深远能力。结论本研究的重点是用集成算法提高分类模型的性能。迁移学习在小数据集的分类、提高训练速度和准确性方面发挥着至关重要的作用。我们的模型在准确性方面可能优于许多现有方法,并在辅助医疗诊断领域有应用。
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引用次数: 0
Guide for Authors 作者指南
Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2023-05-01 DOI: 10.1016/S2667-1026(23)00036-0
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引用次数: 0
Big data technology in infectious diseases modeling, simulation, and prediction after the COVID-19 outbreak 新冠肺炎疫情后传染病建模、模拟和预测中的大数据技术
Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2023-05-01 DOI: 10.1016/j.imed.2023.01.002
Honghao Shi , Jingyuan Wang , Jiawei Cheng , Xiaopeng Qi , Hanran Ji , Claudio J Struchiner , Daniel AM Villela , Eduard V Karamov , Ali S Turgiev

After the outbreak of COVID-19, the interaction of infectious disease systems and social systems has challenged traditional infectious disease modeling methods. Starting from the research purpose and data, researchers improved the structure and data of the compartment model or used agents and artificial intelligence based models to solve epidemiological problems. In terms of modeling methods, the researchers use compartment subdivision, dynamic parameters, agent-based model methods, and artificial intelligence related methods. In terms of factors studied, the researchers studied 6 categories: human mobility, nonpharmaceutical interventions (NPIs), ages, medical resources, human response, and vaccine. The researchers completed the study of factors through modeling methods to quantitatively analyze the impact of social systems and put forward their suggestions for the future transmission status of infectious diseases and prevention and control strategies. This review started with a research structure of research purpose, factor, data, model, and conclusion. Focusing on the post-COVID-19 infectious disease prediction simulation research, this study summarized various improvement methods and analyzes matching improvements for various specific research purposes.

新冠肺炎爆发后,传染病系统与社会系统的相互作用对传统的传染病建模方法提出了挑战。从研究目的和数据出发,研究人员改进了隔间模型的结构和数据,或使用基于代理和人工智能的模型来解决流行病学问题。在建模方法方面,研究人员使用了隔间细分、动态参数、基于主体的模型方法和人工智能相关方法。就研究的因素而言,研究人员研究了6类:人类流动性、非药物干预(NPI)、年龄、医疗资源、人类反应和疫苗。研究人员通过建模方法完成了对因素的研究,定量分析了社会系统的影响,并对未来传染病的传播状况和防控策略提出了建议。这篇综述从研究目的、因素、数据、模型和结论的研究结构开始。本研究以COVID-19后传染病预测模拟研究为重点,总结了各种改进方法,并针对各种具体研究目的分析了匹配改进。
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引用次数: 1
Expert recommendation on collection, storage, annotation, and management of data related to medical artificial intelligence 关于医疗人工智能相关数据的收集、存储、注释和管理的专家建议
Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2023-05-01 DOI: 10.1016/j.imed.2021.11.002
Yahan Yang , Ruiyang Li , Yifan Xiang , Duoru Lin , Anqi Yan , Wenben Chen , Zhongwen Li , Weiyi Lai , Xiaohang Wu , Cheng Wan , Wei Bai , Xiucheng Huang , Qiang Li , Wenrui Deng , Xiyang Liu , Yucong Lin , Pisong Yan , Haotian Lin , Chinese Association of Artificial Intelligence, Medical Artificial Intelligence Branch of Guangdong Medical Association

Medical artificial intelligence (AI) and big data technology have rapidly advanced in recent years, and they are now routinely used for image-based diagnosis. China has a massive amount of medical data. However, a uniform criteria for medical data quality have yet to be established. Therefore, this review aimed to develop a standardized and detailed set of quality criteria for medical data collection, storage, annotation, and management related to medical AI. This would greatly improve the process of medical data resource sharing and the use of AI in clinical medicine.

近年来,医学人工智能(AI)和大数据技术迅速发展,目前已被常规用于基于图像的诊断。中国有大量的医学数据。然而,尚未建立统一的医疗数据质量标准。因此,本综述旨在为医疗人工智能相关的医疗数据收集、存储、注释和管理制定一套标准化、详细的质量标准。这将极大地改善医疗数据资源共享过程和人工智能在临床医学中的使用。
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引用次数: 5
Internet-based nationwide evaluation of patient preferences for mobile health features in ankylosing spondylitis 基于互联网的强直性脊柱炎患者对移动健康特征偏好的全国性评估
Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2023-05-01 DOI: 10.1016/j.imed.2022.05.002
Yiwen Wang , Xiaojian Ji , Lidong Hu, Jian Zhu, Jianglin Zhang, Feng Huang

Background

Ankylosing spondylitis (AS) generally occurs in young adults. The functional impairments resulting in limitation in activities and social participation might exert lifetime impacts. The present study investigated the preferences for mobile health (mHealth) features motivating the self-management behaviors in AS.

Methods

The present study was an internet-based, nationwide quantitative study based on the Chinese Ankylosing Spondylitis Prospective Imaging Cohort (CASPIC) study, which was a nationwide, ongoing, prospective cohort study launched in conjunction with Smart-phone SpondyloArthritis Management System (SpAMS) in China. Participants with AS from the CASPIC were invited to report their mHealth preferences from December 2019 to February 2020. The questionnaire was designed to determine the patient preferences for 28 mHealth features. Sociodemographic characteristics, including age, gender, and work status, were collected.

Results

Among all the visitors to the online questionnaire (n = 872), 93.9% (819/872) respondents fully completed the questionnaire and were enrolled in the present study. The mean age was (33.4 ± 9.0) years, and 70.57% (578/819) of the respondents were males. The mean scores of 22 (78.57%) features were greater than 4 (like or strongly like). The mean standard deviation (SD) score of exercise instructions was 4.70 (0.63), which was the most preferred feature, whereas the social interaction features were preferred the least. Pain analysis was more preferred among female respondents (4.72 vs. 4.60, P = 0.012), whereas all items of the social interaction theme and social interaction as a whole (3.73 vs. 3.52, P < 0.001) were less preferred among female respondents. Additionally, the following themes were more preferred by respondents aged ≤ 40 years: credibility and styling (4.37 vs. 4.19, P < 0.001); disease action support (4.55 vs. 4.47, P = 0.007); and incentivization (4.35 vs. 4.24, P = 0.025).

Conclusion

AS patients show great interest for the majority of mHealth features. Exercise instructions and exercise scheduling are the most preferred features, whereas social interaction is the least preferred feature. In addition, gender-related and age-related differences exist in mHealth feature preferences.

背景强直性脊柱炎(AS)通常发生在年轻人身上。导致活动和社会参与受限的功能损伤可能会对一生产生影响。本研究调查了AS对移动健康(mHealth)特征的偏好,这些特征激发了他们的自我管理行为。方法本研究是一项基于互联网的全国性定量研究,基于中国强直性脊柱炎前瞻性成像队列(CASPIC)研究,这是一项全国性的、正在进行的、,与中国智能手机脊椎关节炎管理系统(SpAMS)联合开展的前瞻性队列研究。来自CASPIC的AS参与者被邀请在2019年12月至2020年2月期间报告他们的mHealth偏好。该问卷旨在确定患者对28 mHealth特征的偏好。收集社会形态特征,包括年龄、性别和工作状况。结果在所有在线问卷访问者(n=872)中,93.9%(819/872)的受访者完全完成了问卷并参与了本研究。平均年龄为(33.4±9.0)岁,70.57%(578/819)的受访者为男性。22个(78.57%)特征的平均得分大于4(相似或强烈相似)。运动指令的平均标准差(SD)得分为4.70(0.63),这是最优选的特征,而社交互动特征是最不优选的。女性受访者更喜欢疼痛分析(4.72对4.60,P=0.012),而女性受访者更不喜欢社会互动主题和整个社会互动的所有项目(3.73对3.52,P<;0.001)。此外,年龄≤40岁的受访者更喜欢以下主题:可信度和风格(4.37对4.19,P<;0.001);疾病行动支持(4.55对4.47,P=0.007);和激励(4.35对4.24,P=0.025)。结论AS患者对mHealth的大多数特征表现出极大的兴趣。运动指导和运动计划是最受欢迎的特征,而社交是最不受欢迎的特点。此外,mHealth特征偏好存在性别相关和年龄相关的差异。
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引用次数: 0
Real-time digital data of international passengers will shine in the precaution of epidemics 国际旅客的实时数字数据将在预防流行病方面发挥重要作用
Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2023-02-01 DOI: 10.1016/j.imed.2022.10.002
Naizhe Li , Lu Dong

International movement plays an important role in spatial spread of infectious diseases. Here, we share two successful COVID-19 interventions based on real-time digital information collected from international passengers, which have been performed in Greece and China respectively. Both of the interventions demonstrated good performance and showed the potential of real-time digital data in containing the spread. However, several key points should not be ignored when we promote similar strategies.

国际运动在传染病的空间传播中发挥着重要作用。在这里,我们分享了两种成功的新冠肺炎干预措施,它们基于从国际乘客那里收集的实时数字信息,分别在希腊和中国进行。这两项干预措施都表现出了良好的效果,并显示了实时数字数据在遏制传播方面的潜力。然而,在我们推广类似战略时,不应忽视几个关键点。
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引用次数: 0
Application of big data and artificial intelligence in epidemic surveillance and containment 大数据和人工智能在疫情监测和防控中的应用
Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2023-02-01 DOI: 10.1016/j.imed.2022.10.003
Zengtao Jiao , Hanran Ji , Jun Yan , Xiaopeng Qi

Faced with the current time-sensitive COVID-19 pandemic, the overburdened healthcare systems have resulted in a strong demand to develop newer methods to control the spread of the pandemic. Big data and artificial intelligence (AI) have been leveraged amid the COVID-19 pandemic; however, little is known about their use for supporting public health efforts. In epidemic surveillance and containment, efforts are needed to treat critical patients, track and manage the health status of residents, isolate suspected cases, and develop vaccines and antiviral drugs. The applications of emerging practices of artificial intelligence and big data have become powerful “weapons” to fight against the pandemic and provide strong support in pandemic prevention and control, such as early warning, analysis and judgment, interruption and intervention of epidemic, to achieve goals of early detection, early report, early diagnosis, early isolation and early treatment. These are the decisive factors to control the spread of the epidemic and reduce the mortality. This paper systematically summarized the application of big data and AI in epidemic, and describes practical cases and challenges with emphasis on epidemic prevention and control. The included studies showed that big data and AI have the potential strength to fight against COVID-19. However, many of the proposed methods are not yet widely accepted. Thus, the most rewarding research would be on methods that promise value beyond COVID-19. More efforts are needed for developing standardized reporting protocols or guidelines for practice.

面对当前具有时效性的COVID-19大流行,负担过重的卫生保健系统强烈要求开发新的方法来控制大流行的传播。大数据和人工智能(AI)在新冠肺炎大流行中发挥了作用;然而,人们对它们在支持公共卫生工作方面的作用知之甚少。在疫情监测和控制方面,需要努力治疗危重患者,跟踪和管理居民健康状况,隔离疑似病例,开发疫苗和抗病毒药物。人工智能、大数据等新兴实践的应用,成为疫情预警、分析判断、中断干预等抗击疫情的有力“武器”,为疫情防控提供有力支撑,实现早发现、早报告、早诊断、早隔离、早治疗的目标。这些是控制疫情蔓延、降低死亡率的决定性因素。本文系统总结了大数据和人工智能在疫情中的应用,并以疫情防控为重点,描述了实际案例和挑战。纳入的研究表明,大数据和人工智能具有抗击新冠肺炎的潜在力量。然而,许多提出的方法尚未被广泛接受。因此,最有价值的研究将是那些有望超越COVID-19的价值的方法。需要更多的努力来制定标准化的报告协议或实践指南。
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引用次数: 4
Transformers in medical image analysis 医学图像分析中的变压器
Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2023-02-01 DOI: 10.1016/j.imed.2022.07.002
Kelei He , Chen Gan , Zhuoyuan Li , Islem Rekik , Zihao Yin , Wen Ji , Yang Gao , Qian Wang , Junfeng Zhang , Dinggang Shen

Transformers have dominated the field of natural language processing and have recently made an impact in the area of computer vision. In the field of medical image analysis, transformers have also been successfully used in to full-stack clinical applications, including image synthesis/reconstruction, registration, segmentation, detection, and diagnosis. This paper aimed to promote awareness of the applications of transformers in medical image analysis. Specifically, we first provided an overview of the core concepts of the attention mechanism built into transformers and other basic components. Second, we reviewed various transformer architectures tailored for medical image applications and discuss their limitations. Within this review, we investigated key challenges including the use of transformers in different learning paradigms, improving model efficiency, and coupling with other techniques. We hope this review would provide a comprehensive picture of transformers to readers with an interest in medical image analysis.

变形金刚在自然语言处理领域占据主导地位,最近在计算机视觉领域产生了影响。在医学图像分析领域,变压器也成功地应用于全栈临床应用,包括图像合成/重建、配准、分割、检测和诊断。本文旨在提高人们对变压器在医学图像分析中的应用的认识。具体来说,我们首先概述了内置于变压器和其他基本组件中的注意力机制的核心概念。其次,我们回顾了为医学图像应用量身定制的各种变压器架构,并讨论了它们的局限性。在这篇综述中,我们研究了主要的挑战,包括在不同的学习范式中使用转换器,提高模型效率,以及与其他技术的耦合。我们希望这篇综述能够为对医学图像分析感兴趣的读者提供一个全面的变形金刚图片。
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引用次数: 78
COVID-19 pharmacological research trends: a bibliometric analysis COVID-19药理学研究趋势:文献计量学分析
Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2023-02-01 DOI: 10.1016/j.imed.2022.06.004
Yanyan Shi , Yahan Song , Zhijun Guo , Wei Yu , Huiling Zheng , Shigang Ding , Siyan Zhan

Background

The coronavirus disease 2019 (COVID-19) pandemic is ravaging the world. Many therapies have been explored to treat COVID-19. This report aimed to assess the global research trends for the development of COVID-19 therapies.

Methods

We searched the relevant articles on COVID-19 therapies published from January 1, 2020, to May 25, 2022, in the Web of Science Core Collection Database (WOSCC). VOSviewer 1.6.18 software was used to assess data on the countries, institutions, authors, collaborations, keywords, and journals that were most implicated in COVID-19 pharmacological research. The latest research and changing trends in COVID-19-relevant pharmacological research were analyzed.

Results

After manually eliminating articles that do not meet the requirements, a total of 5,289 studies authored by 32,932 researchers were eventually included in the analyses, which comprised 95 randomized controlled trials. 3,044 (57.6%) studies were published in 2021. The USA conducted the greatest number of studies, followed by China and India. The primary USA collaborators were China and England. The topics covered in the publications included: the general characteristics, the impact on pharmacists’ work, the pharmacological research, broad-spectrum antiviral drug therapy and research, and promising targets or preventive measures, such as vaccine. The temporal diagram revealed that the current research hotspots focused on the vaccine, molecular docking, Mpro, and drug delivery keywords.

Conclusion

Comprehensive bibliometric analysis could aid the rapid identification of the principal research topics, potential collaborators, and the direction of future research. Pharmacological research is critical for the development of therapeutic and preventive COVID-19-associated measures. This study may therefore provide valuable information for eradicating COVID-19.

背景2019冠状病毒病(新冠肺炎)大流行正在肆虐世界。已经探索了许多治疗新冠肺炎的疗法。本报告旨在评估新冠肺炎疗法发展的全球研究趋势。方法检索2020年1月1日至2022年5月25日发表的新冠肺炎疗法相关文章,检索科学网核心收藏数据库(WOSCC)。VOSviewer 1.6.18软件用于评估新冠肺炎药理学研究涉及最多的国家、机构、作者、合作、关键词和期刊的数据。分析了新冠肺炎相关药理研究的最新进展和变化趋势。结果在手动删除不符合要求的文章后,32932名研究人员撰写的5289项研究最终被纳入分析,其中包括95项随机对照试验。2021年发表了3044项研究(57.6%)。美国进行的研究数量最多,其次是中国和印度。美国的主要合作者是中国和英国。出版物涵盖的主题包括:一般特征、对药剂师工作的影响、药理学研究、广谱抗病毒药物治疗和研究,以及有前景的靶点或预防措施,如疫苗。时序图显示,目前的研究热点集中在疫苗、分子对接、Mpro和药物递送关键词上。结论综合文献计量分析有助于快速确定主要研究主题、潜在合作者和未来研究方向。药理学研究对于开发与COVID-19相关的治疗和预防措施至关重要。因此,本研究可能为根除新冠肺炎提供有价值的信息。
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引用次数: 2
Deep learning in cortical surface-based neuroimage analysis: a systematic review 基于皮质表面的深度学习神经图像分析:系统综述
Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2023-02-01 DOI: 10.1016/j.imed.2022.06.002
Fenqiang Zhao, Zhengwang Wu, Gang Li

Deep learning approaches, especially convolutional neural networks (CNNs), have become the method of choice in the field of medical image analysis over the last few years. This prevalence is attributed to their excellent abilities to learn features in a more effective and efficient manner, not only for 2D/3D images in the Euclidean space, but also for meshes and graphs in non-Euclidean space such as cortical surfaces in neuroimaging analysis field. The brain cerebral cortex is a highly convoluted and thin sheet of gray matter (GM) that is thus typically represented by triangular surface meshes with an intrinsic spherical topology for each hemisphere. Accordingly, novel tailored deep learning methods have been developed for cortical surface-based analysis of neuroimaging data. This paper reviewsed the representative deep learning techniques relevant to cortical surface-based analysis and summarizes recent major contributions to the field. Specifically, we surveyed the use of deep learning techniques for cortical surface reconstruction, registration, parcellation, prediction, and other applications. We concluded by discussing the open challenges, limitations, and potentials of these techniques, and suggested directions for future research.

在过去的几年里,深度学习方法,特别是卷积神经网络(cnn),已经成为医学图像分析领域的首选方法。这种普及归功于它们出色的学习特征的能力,不仅适用于欧几里得空间的2D/3D图像,也适用于非欧几里得空间的网格和图形,如神经成像分析领域的皮质表面。大脑皮层是一个高度卷曲的薄灰质(GM)薄片,因此通常由三角形表面网格表示,每个半球具有固有的球形拓扑结构。因此,新的定制深度学习方法已经开发用于基于皮质表面的神经成像数据分析。本文回顾了与皮层表面分析相关的代表性深度学习技术,并总结了该领域最近的主要贡献。具体来说,我们调查了深度学习技术在皮质表面重建、配准、分割、预测和其他应用中的应用。最后讨论了这些技术存在的挑战、局限性和潜力,并提出了未来的研究方向。
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引用次数: 3
期刊
Intelligent medicine
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