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An end‐to‐end infant brain parcellation pipeline 端到端的婴儿脑包裹管道
IF 4.4 Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2024-05-01 DOI: 10.1016/j.imed.2023.05.002
Limei Wang, Yue Sun, Weili Lin, Gang Li, Li Wang

Objective

Accurate infant brain parcellation is crucial for understanding early brain development; however, it is challenging due to the inherent low tissue contrast, high noise, and severe partial volume effects in infant magnetic resonance images (MRIs). The aim of this study was to develop an end-to-end pipeline that enabled accurate parcellation of infant brain MRIs.

Methods

We proposed an end-to-end pipeline that employs a two-stage global-to-local approach for accurate parcellation of infant brain MRIs. Specifically, in the global regions of interest (ROIs) localization stage, a combination of transformer and convolution operations was employed to capture both global spatial features and fine texture features, enabling an approximate localization of the ROIs across the whole brain. In the local ROIs refinement stage, leveraging the position priors from the first stage along with the raw MRIs, the boundaries of the ROIs are refined for a more accurate parcellation.

Results

We utilized the Dice ratio to evaluate the accuracy of parcellation results. Results on 263 subjects from National Database for Autism Research (NDAR), Baby Connectome Project (BCP) and Cross-site datasets demonstrated the better accuracy and robustness of our method than other competing methods.

Conclusion

Our end-to-end pipeline may be capable of accurately parcellating 6-month-old infant brain MRIs.

目的准确的婴儿脑部解析对于了解早期脑部发育至关重要;然而,由于婴儿磁共振成像(MRI)固有的低组织对比度、高噪声和严重的部分容积效应,这项工作极具挑战性。本研究的目的是开发一种端到端流水线,实现对婴儿脑部核磁共振图像的精确分割。方法我们提出了一种端到端流水线,采用从全局到局部的两阶段方法对婴儿脑部核磁共振图像进行精确分割。具体来说,在全局感兴趣区(ROIs)定位阶段,我们采用了变压器和卷积操作相结合的方法来捕捉全局空间特征和精细纹理特征,从而在整个大脑中对感兴趣区进行近似定位。在局部 ROIs 细化阶段,利用第一阶段的位置先验和原始 MRIs,对 ROIs 的边界进行细化,以获得更精确的解析结果。对来自美国国家自闭症研究数据库(NDAR)、婴儿连接组计划(BCP)和跨站点数据集的 263 个受试者的研究结果表明,与其他竞争方法相比,我们的方法具有更好的准确性和鲁棒性。
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引用次数: 0
Guide for Authors 作者指南
IF 4.4 Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2024-05-01 DOI: 10.1016/S2667-1026(24)00028-7
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引用次数: 0
Deep learning methods for noisy sperm image classification from convolutional neural network to visual transformer: a comprehensive comparative study 深度学习方法在有噪精子图像分类中的综合比较研究:从卷积神经网络到视觉变压器
IF 4.4 Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2024-05-01 DOI: 10.1016/j.imed.2023.04.001
Ao Chen , Chen Li , Md Mamunur Rahaman , Yudong Yao , Haoyuan Chen , Hechen Yang , Peng Zhao , Weiming Hu , Wanli Liu , Shuojia Zou , Ning Xu , Marcin Grzegorzek

Background With the gradual increase of infertility in the world, among which male sperm problems are the main factor for infertility, more and more couples are using computer-assisted sperm analysis (CASA) to assist in the analysis and treatment of infertility. Meanwhile, the rapid development of deep learning (DL) has led to strong results in image classification tasks. However, the classification of sperm images has not been well studied in current deep learning methods, and the sperm images are often affected by noise in practical CASA applications. The purpose of this article is to investigate the anti-noise robustness of deep learning classification methods applied on sperm images.

Methods The SVIA dataset is a publicly available large-scale sperm dataset containing three subsets. In this work, we used subset-C, which provides more than 125,000 independent images of sperms and impurities, including 121,401 sperm images and 4,479 impurity images. To investigate the anti-noise robustness of deep learning classification methods applied on sperm images, we conducted a comprehensive comparative study of sperm images using many convolutional neural network (CNN) and visual transformer (VT) deep learning methods to find the deep learning model with the most stable anti-noise robustness.

Results This study proved that VT had strong robustness for the classification of tiny object (sperm and impurity) image datasets under some types of conventional noise and some adversarial attacks. In particular, under the influence of Poisson noise, accuracy changed from 91.45% to 91.08%, impurity precison changed from 92.7% to 91.3%, impurity recall changed from 88.8% to 89.5%, and impurity F1-score changed 90.7% to 90.4%. Meanwhile, sperm precision changed from 90.9% to 90.5%, sperm recall changed from 92.5% to 93.8%, and sperm F1-score changed from 92.1% to 90.4%.

Conclusion Sperm image classification may be strongly affected by noise in current deep learning methods; the robustness with regard to noise of VT methods based on global information is greater than that of CNN methods based on local information, indicating that the robustness with regard to noise is reflected mainly in global information.

背景 随着全球不孕不育症患者的逐渐增多,其中男性精子问题是导致不孕不育的主要因素,越来越多的夫妇开始使用计算机辅助精子分析(CASA)来辅助分析和治疗不孕不育症。与此同时,深度学习(DL)的快速发展使其在图像分类任务中取得了丰硕成果。然而,目前的深度学习方法尚未对精子图像的分类进行深入研究,而且在实际的 CASA 应用中,精子图像往往会受到噪声的影响。本文旨在研究应用于精子图像的深度学习分类方法的抗噪声鲁棒性。方法 SVIA 数据集是一个公开的大规模精子数据集,包含三个子集。在这项工作中,我们使用了子集 C,它提供了超过 125,000 张独立的精子和杂质图像,包括 121,401 张精子图像和 4,479 张杂质图像。为了研究深度学习分类方法在精子图像上的抗噪声鲁棒性,我们使用多种卷积神经网络(CNN)和视觉变换器(VT)深度学习方法对精子图像进行了全面的对比研究,以找到抗噪声鲁棒性最稳定的深度学习模型。结果 这项研究证明,在一些类型的常规噪声和一些对抗性攻击下,VT对微小物体(精子和杂质)图像数据集的分类具有很强的鲁棒性。其中,在泊松噪声的影响下,准确率从 91.45% 变为 91.08%,杂质精度从 92.7% 变为 91.3%,杂质召回率从 88.8% 变为 89.5%,杂质 F1 分数从 90.7% 变为 90.4%。结论 目前的深度学习方法中,精子图像分类可能会受到噪声的强烈影响;基于全局信息的 VT 方法对噪声的鲁棒性大于基于局部信息的 CNN 方法,表明对噪声的鲁棒性主要体现在全局信息上。
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引用次数: 0
Deep learning models for tuberculosis detection and infected region visualization in chest X-ray images 基于深度学习模型的胸部x线图像结核检测与感染区可视化
IF 4.4 Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2024-05-01 DOI: 10.1016/j.imed.2023.06.001
Vinayak Sharma , Nillmani , Sachin Kumar Gupta , Kaushal Kumar Shukla

Objective

Tuberculosis (TB) is among the most frequent causes of infectious-disease-related mortality. Despite being treatable by antibiotics, tuberculosis often goes misdiagnosed and untreated, especially in rural and low-resource areas. Chest X-rays are frequently used to aid diagnosis; however, this presents additional challenges because of the possibility of abnormal radiological appearance and a lack of radiologists in areas where the infection is most prevalent. Implementing deep-learning-based imaging techniques for computer-aided diagnosis has the potential to enable accurate diagnoses and lessen the burden on medical specialists. In the present work, we aimed to develop deep-learning-based segmentation and classification models for accurate and precise detection of tuberculosis in chest X-ray images, with visualization of infection using gradient-weighted class activation mapping (Grad-CAM) heatmaps.

Methods

First, we trained the UNet segmentation model using 704 chest X-ray radiographs taken from the Montgomery County and Shenzhen Hospital datasets. Next, we implemented the trained UNet model on 1,400 tuberculosis and control chest X-ray scans to segment the lung region. The images were taken from the National Institute of Allergy and Infectious Diseases (NIAID) TB portal program dataset. Then, we applied the deep learning Xception model to classify the segmented lung region into tuberculosis and normal classes. We further investigated the visualization capabilities of the model using Grad-CAM to view tuberculosis abnormalities in chest X-rays and discuss them from radiological perspectives.

Results

For segmentation by the UNet model, we achieved accuracy, Jaccard index, Dice coefficient, and area under the curve (AUC) values of 96.35%, 90.38%, 94.88%, and 0.99, respectively. For classification by the Xception model, we achieved classification accuracy, precision, recall, F1-score, and AUC values of 99.29%, 99.30%, 99.29%, 99.29%, and 0.999, respectively. The Grad-CAM heatmap images from the tuberculosis class showed similar heatmap patterns, where lesions were primarily present in the upper part of the lungs.

Conclusion

The findings may verify our system's efficacy and superiority to clinician precision in tuberculosis diagnosis using chest X-rays and raise the possibility of a valuable setup, particularly in environments with a scarcity of radiological expertise.

目的结核病(TB)是传染病导致死亡的最常见原因之一。尽管结核病可以通过抗生素治疗,但却经常被误诊和误治,尤其是在农村和资源匮乏地区。胸部 X 射线检查常用于辅助诊断,但这也带来了额外的挑战,因为可能会出现放射学外观异常,而且在感染最流行的地区缺乏放射科医生。采用基于深度学习的成像技术进行计算机辅助诊断有可能实现准确诊断,减轻医学专家的负担。在本研究中,我们旨在开发基于深度学习的分割和分类模型,以便在胸部 X 光图像中准确、精确地检测结核病,并利用梯度加权类激活映射(Grad-CAM)热图将感染可视化。接着,我们在 1,400 张肺结核和对照组胸部 X 光片上使用训练好的 UNet 模型来分割肺部区域。这些图像来自美国国家过敏与传染病研究所(NIAID)结核病门户网站项目数据集。然后,我们应用深度学习 Xception 模型将分割后的肺部区域分为肺结核和正常两类。我们使用 Grad-CAM 进一步研究了该模型的可视化功能,以查看胸部 X 光片中的结核病异常,并从放射学的角度对其进行讨论。结果对于 UNet 模型的分割,我们获得的准确率、Jaccard 指数、Dice 系数和曲线下面积(AUC)值分别为 96.35%、90.38%、94.88% 和 0.99。在 Xception 模型的分类中,我们的分类准确率、精确度、召回率、F1 分数和 AUC 值分别达到了 99.29%、99.30%、99.29%、99.29% 和 0.999。肺结核类的 Grad-CAM 热图图像显示了类似的热图模式,病变主要出现在肺的上半部分。
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引用次数: 0
Millimeter waves in medical applications: status and prospects 毫米波在医疗领域的应用:现状与前景
Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2024-02-01 DOI: 10.1016/j.imed.2023.07.002
Honglin Wang , Lin Lu , Pengran Liu , Jiayao Zhang , Songxiang Liu , Yi Xie , Tongtong Huo , Hong Zhou , Mingdi Xue , Ying Fang , Jiaming Yang , Zhewei Ye

Millimeter waves are electromagnetic waves with wavelengths of 1–10 mm, which have characteristics of high frequency and short wavelength. They have gradually and widely been used in engineering and medical fields. We have identified studies related to millimeter waves in the biomedical field and summarized the biological effects of millimeter waves and their current status in medical applications. Finally, the shortcomings of existing studies and future developments were analyzed and discussed, with the aim of providing a reference for further research and development of millimeter waves in the medical field.

毫米波是波长为 1-10 毫米的电磁波,具有频率高、波长短的特点。它们已逐渐被广泛应用于工程和医学领域。我们梳理了与毫米波在生物医学领域相关的研究,总结了毫米波的生物效应及其在医学领域的应用现状。最后,对现有研究的不足和未来发展进行了分析和讨论,旨在为毫米波在医学领域的进一步研究和发展提供参考。
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引用次数: 0
A hierarchical clustering approach for colorectal cancer molecular subtypes identification from gene expression data 从基因表达数据中识别结直肠癌分子亚型的层次聚类方法
Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2024-02-01 DOI: 10.1016/j.imed.2023.04.002
Shivangi Raghav , Aastha Suri , Deepika Kumar , Aakansha Aakansha , Muskan Rathore , Sudipta Roy

Background

Colorectal cancer (CRC) is the second leading cause of cancer fatalities and the third most common human disease. Identifying molecular subgroups of CRC and treating patients accordingly could result in better therapeutic success compared with treating all CRC patients similarly. Studies have highlighted the significance of CRC as a major cause of mortality worldwide and the potential benefits of identifying molecular subtypes to tailor treatment strategies and improve patient outcomes.

Methods

This study proposed an unsupervised learning approach using hierarchical clustering and feature selection to identify molecular subtypes and compares its performance with that of conventional methods. The proposed model contained gene expression data from CRC patients obtained from Kaggle and used dimension reduction techniques followed by Z-score-based outlier removal. Agglomerative hierarchy clustering was used to identify molecular subtypes, with a P-value-based approach for feature selection. The performance of the model was evaluated using various classifiers including multilayer perceptron (MLP).

Results

The proposed methodology outperformed conventional methods, with the MLP classifier achieving the highest accuracy of 89% after feature selection. The model successfully identified molecular subtypes of CRC and differentiated between different subtypes based on their gene expression profiles.

Conclusion

This method could aid in developing tailored therapeutic strategies for CRC patients, although there is a need for further validation and evaluation of its clinical significance.

背景直肠癌(CRC)是导致癌症死亡的第二大原因,也是人类第三大常见疾病。与对所有 CRC 患者进行类似治疗相比,识别 CRC 的分子亚群并对患者进行相应治疗可能会取得更好的治疗效果。研究强调了 CRC 作为全球主要致死原因的重要性,以及识别分子亚型对定制治疗策略和改善患者预后的潜在益处。方法本研究提出了一种使用分层聚类和特征选择来识别分子亚型的无监督学习方法,并将其性能与传统方法进行了比较。提出的模型包含从 Kaggle 获取的 CRC 患者的基因表达数据,并使用了降维技术,然后基于 Z-score去除离群值。聚合分层聚类用于识别分子亚型,并采用基于 P 值的方法进行特征选择。使用包括多层感知器(MLP)在内的各种分类器对该模型的性能进行了评估。结果所提出的方法优于传统方法,其中 MLP 分类器在特征选择后的准确率最高,达到 89%。该模型成功识别了 CRC 的分子亚型,并根据不同亚型的基因表达谱对其进行了区分。
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引用次数: 0
Development and prospect of telemedicine 远程医疗的发展与展望
Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2024-02-01 DOI: 10.1016/j.imed.2022.10.004
Zhiyue Su , Chengquan Li , Haitian Fu , Liyang Wang , Meilong Wu , Xiaobin Feng

With the continuous improvement and development of modern network information technology and the continuous improvement of people's demands for health care, the traditional health care model has evolved, giving birth to a new telemedicine health care model. Telemedicine refers to the comprehensive application of information technology for medical information transmission and long-distance communication between different places. It integrates medicine, computer technology, and communication technology for remote monitoring, diagnosis, consultation, case discussion, teaching, and surgery as well as a series of medical activities. With the continuous development of communication technology, telemedicine is also constantly changing. As a relatively novel technology, telemedicine is sought after by major hospitals. With the advancement of internet technology, digitization and informatization have been gradually applied in telemedicine, but due to various factors, telemedicine still has great limitations. This paper summarized the development status of telemedicine; discussed in detail the development of telemedicine at home and abroad; reviewed the application of telemedicine as well as the feasibility and limitations of its promotion and development; and put forward an outlook for the future development of telemedicine.

随着现代网络信息技术的不断完善和发展,以及人们对医疗保健需求的不断提高,传统的医疗保健模式发生了演变,催生了新的远程医疗保健模式。远程医疗是指综合应用信息技术进行医疗信息传输和异地远程通信。它集医学、计算机技术、通信技术于一体,进行远程监测、诊断、会诊、病例讨论、教学、手术等一系列医疗活动。随着通信技术的不断发展,远程医疗也在不断变化。作为一项比较新颖的技术,远程医疗受到各大医院的追捧。随着互联网技术的进步,数字化和信息化逐渐应用到远程医疗中,但由于各种因素的影响,远程医疗仍然存在很大的局限性。本文总结了远程医疗的发展现状;详细论述了远程医疗在国内外的发展情况;综述了远程医疗的应用及其推广和发展的可行性和局限性;并对远程医疗的未来发展进行了展望。
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引用次数: 0
Medical artificial intelligence and the black box problem: a view based on the ethical principle of “do no harm” 医疗人工智能与黑匣子问题——基于“不伤害”伦理原则的观点
Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2024-02-01 DOI: 10.1016/j.imed.2023.08.001
Hanhui Xu , Kyle Michael James Shuttleworth

One concern about the application of medical artificial intelligence (AI) regards the “black box” feature which can only be viewed in terms of its inputs and outputs, with no way to understand the AI's algorithm. This is problematic because patients, physicians, and even designers, do not understand why or how a treatment recommendation is produced by AI technologies. One view claims that the worry about black-box medicine is unreasonable because AI systems outperform human doctors in identifying the disease. Furthermore, under the medical AI-physician-patient model, the physician can undertake the responsibility of interpreting the medical AI's diagnosis. In this study, we focus on the potential harm caused by the unexplainability feature of medical AI and try to show that such possible harm is underestimated. We will seek to contribute to the literature from three aspects. First, we appealed to a thought experiment to show that although the medical AI systems perform better on accuracy, the harm caused by medical AI's misdiagnoses may be more serious than that caused by human doctors’ misdiagnoses in some cases. Second, in patient-centered medicine, physicians were obligated to provide adequate information to their patients in medical decision-making. However, the unexplainability feature of medical AI systems would limit the patient's autonomy. Last, we tried to illustrate the psychological and financial burdens that may be caused by the unexplainablity feature of medical AI systems, which seems to be ignored by the previous ethical discussions.

医疗人工智能(AI)应用的一个令人担忧的问题是其 "黑盒子 "功能,人们只能看到其输入和输出,而无法了解人工智能的算法。这是一个问题,因为患者、医生甚至设计者都不了解人工智能技术为什么或如何产生治疗建议。有一种观点认为,对黑箱医疗的担忧是不合理的,因为人工智能系统在识别疾病方面优于人类医生。此外,在医疗人工智能-医生-患者模式下,医生可以承担解释医疗人工智能诊断的责任。在本研究中,我们重点关注医疗人工智能的不可解释性特征可能造成的危害,并试图证明这种可能的危害被低估了。我们将从三个方面为相关文献做出贡献。首先,我们通过一个思想实验来说明,虽然医疗人工智能系统在准确性上表现更好,但在某些情况下,医疗人工智能误诊造成的危害可能比人类医生误诊造成的危害更严重。其次,在以患者为中心的医学中,医生有义务在医疗决策中为患者提供充分的信息。然而,医疗人工智能系统的不可解释性会限制患者的自主权。最后,我们试图说明医疗人工智能系统的不可解释性特征可能造成的心理和经济负担,而以往的伦理讨论似乎忽视了这一点。
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引用次数: 0
Guide for Authors 作者指南
Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2024-02-01 DOI: 10.1016/S2667-1026(24)00017-2
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引用次数: 0
A computed tomography-based radiomic model for the prediction of strangulation risk in patients with acute intestinal obstruction 基于CT的放射学模型预测急性肠梗阻患者绞杀风险
Q1 COMPUTER SCIENCE, INTERDISCIPLINARY APPLICATIONS Pub Date : 2024-02-01 DOI: 10.1016/j.imed.2023.02.002
Zhibo Wang , Ruiqing Liu , Shunli Liu , Baoying Sun , Wentao Xie , Dongsheng Wang , Yun Lu

Background

We created and validated a computed tomography (CT)-based radiomic model using both clinical factors and the radiomic signature for assessing the strangulation risk of acute intestinal obstruction. This would assist surgeons in accurately predicting intestinal ischemia and strangulation in patients with intestinal obstruction.

Methods

We recruited 289 patients with acute intestinal obstruction admitted in the Affiliated Hospital of Qingdao University from January 2019 to February 2022. The patients were allocated to a training (n = 226) and validation cohort (n = 63). Radiomic features were collected from CT images, and the radiomic signature was extracted and used to calculate a radiomic score (Rad-score). A nomogram was constructed using the clinical features and the Rad-score, and the performance of the clinical, radiomics, and nomogram models was assessed in the two cohorts.

Results

Six robust features were used to construct the radiomic signature. The nomogram incorporating hemoglobin levels, C-reactive protein levels, American Society of Anesthesiologists score, time of obstruction, CT image of mesenteric fluid (P < 0.05), and the signature demonstrated good predictive ability for intestinal ischemia in patients with acute intestinal obstruction, with areas under the curve of 0.892 (95% confidence interval, 0.837–0.947) and 0.781 (95% confidence interval, 0.619–0.944) for the training and validation sets, respectively. The decision curve analysis showed that this model outperformed the clinical and radiomic signature models.

Conclusion

The radiomic nomogram may effectively predict intestinal ischemia in patients with acute intestinal disease and may assist clinical decision-making.

背景我们创建并验证了一种基于计算机断层扫描(CT)的放射学模型,该模型利用临床因素和放射学特征评估急性肠梗阻的绞窄风险。这将有助于外科医生准确预测肠梗阻患者的肠缺血和绞窄情况。方法 我们招募了 2019 年 1 月至 2022 年 2 月在青岛大学附属医院住院的 289 名急性肠梗阻患者。患者被分配到训练队列(226 人)和验证队列(63 人)。从CT图像中收集放射学特征,提取放射学特征并用于计算放射学评分(Rad-score)。使用临床特征和 Rad 评分构建了一个提名图,并在两个队列中评估了临床、放射组学和提名图模型的性能。包含血红蛋白水平、C 反应蛋白水平、美国麻醉医师协会评分、梗阻时间、肠系膜积液 CT 图像(P < 0.05)和特征的提名图对急性肠梗阻患者肠缺血具有良好的预测能力,训练集和验证集的曲线下面积分别为 0.892(95% 置信区间,0.837-0.947)和 0.781(95% 置信区间,0.619-0.944)。结论放射学提名图可有效预测急性肠道疾病患者的肠缺血情况,并有助于临床决策。
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引用次数: 0
期刊
Intelligent medicine
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