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Predictive modeling of Alzheimer's disease progression: Integrating temporal clinical factors and outcomes in time series forecasting 阿尔茨海默病进展的预测模型:在时间序列预测中整合时间性临床因素和结果
Pub Date : 2024-01-01 DOI: 10.1016/j.ibmed.2024.100159
K.H. Aqil , Prashanth Dumpuri , Keerthi Ram , Mohanasankar Sivaprakasam

Alzheimer's disease is a complex neurodegenerative disorder that profoundly impacts millions of individuals worldwide, presenting significant challenges in both diagnosis and treatment. Recent advances in deep learning-based methods have shown promising potential for predicting disease progression using multimodal data. However, the majority of studies in this domain have predominantly focused on cross-sectional data, neglecting the crucial temporal dimension of the disease's progression. In this study, we propose a novel approach to predict the progression of Alzheimer's disease by leveraging a multimodal time-series forecasting system based on graph representation learning. Our approach incorporates a Temporal Graph Network encoder, employing k-nearest neighbors and Cumulative Bayesian Ridge with high correlation imputation to generate graph node embeddings at each time step. Furthermore, we employ an Encoder-Decoder architecture, where a Graph Attention Network translates a dynamic graph into node embeddings, and a decoder estimates future edge probabilities. When utilizing all available patient features in the ADNI dataset, our proposed method achieved an Area Under the Curve (AUC) of 0.8090 for dynamic edge prediction. Furthermore, for neuroimaging data, the AUC improved significantly to 0.8807.

阿尔茨海默病是一种复杂的神经退行性疾病,严重影响着全球数百万人,给诊断和治疗带来了巨大挑战。基于深度学习的方法的最新进展表明,利用多模态数据预测疾病进展具有广阔的前景。然而,该领域的大多数研究主要关注横截面数据,忽略了疾病进展的关键时间维度。在本研究中,我们提出了一种新方法,利用基于图表示学习的多模态时间序列预测系统来预测阿尔茨海默病的进展。我们的方法结合了时序图网络编码器,采用 k 近邻和累积贝叶斯岭以及高相关性估算,在每个时间步生成图节点嵌入。此外,我们还采用了编码器-解码器架构,其中图形注意网络将动态图转化为节点嵌入,而解码器则估算未来的边缘概率。当利用 ADNI 数据集中所有可用的患者特征时,我们提出的方法在动态边缘预测方面的曲线下面积 (AUC) 达到了 0.8090。此外,对于神经影像数据,AUC 显著提高到 0.8807。
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引用次数: 0
Automatic characterization of cerebral MRI images for the detection of autism spectrum disorders 自动表征脑磁共振成像图像以检测自闭症谱系障碍
Pub Date : 2024-01-01 DOI: 10.1016/j.ibmed.2023.100127
Nour El Houda Mezrioui , Kamel Aloui , Amine Nait-Ali , Mohamed Saber Naceur

Autism Spectrum Disorders (ASD) are one of the most serious health problems that our generation is facing [1]. It affects around one out of every 54 children and causes issues with social interaction, communication [2] and repetitive behaviors [3]. The development of full biomarkers for neuroimaging is a crucial step in diagnosing and tailoring medical care for autism spectrum disorder [4]. Volumetric studies focused on 3D MRI texture features have shown a high capacity for detecting abnormalities and characterizing variations caused by tissue heterogeneity. Recently, it has been the interest of comprehensive studies. However, only a few studies have aimed to investigate the link between object texture and ASD. This paper suggests a framework based on geometric texture features analyzing the variations between ASD and development control (DC) subjects. Our study uses 1114 T1-weighted MRI scans from two groups of subjects: 521 individuals with ASD and 593 controls (age range: 6–64 years) [5], divided into three broad age groups. We then computed the features from automatically labeled subcortical and cortical regions and encoded them as texture features by applying seven global Riemannian geometry descriptors and eight local features of standard Harlicks quantifier functions. Significant tests were used to identify texture volumetric differences between ASD and DC subjects. The most discriminative features are selected by applying the Correlation Matrix, and these features are used to classify the two classes using an Artificial Neural Network analysis. Preliminary results indicate that in ASD subjects, all 15 structure-derived features and subcortical regions tested have significantly different distributions from DC subjects.

自闭症谱系障碍(ASD)是我们这一代人面临的最严重的健康问题之一[1]。大约每 54 名儿童中就有一名患有自闭症,并导致社交互动、沟通[2]和重复行为[3]等问题。开发用于神经成像的完整生物标记物是诊断和定制自闭症谱系障碍医疗护理的关键一步[4]。以三维核磁共振成像纹理特征为重点的容积研究显示,该技术在检测异常和描述组织异质性引起的变化方面具有很强的能力。最近,它已成为综合研究的兴趣所在。然而,只有少数研究旨在调查物体纹理与 ASD 之间的联系。本文提出了一个基于几何纹理特征的框架,分析 ASD 和发育对照组(DC)受试者之间的差异。我们的研究使用了两组受试者的 1114 张 T1 加权磁共振成像扫描图:521 名 ASD 患者和 593 名对照组患者(年龄范围:6-64 岁)[5],分为三大年龄组。然后,我们计算了自动标记的皮层下和皮层区域的特征,并通过应用七个全局黎曼几何描述符和标准哈里克量化函数的八个局部特征将其编码为纹理特征。通过显著性测试来确定 ASD 和 DC 受试者之间的纹理体积差异。通过应用相关矩阵选出最具区分性的特征,并利用人工神经网络分析法对这些特征进行分类。初步结果表明,在 ASD 受试者中,所测试的全部 15 个结构衍生特征和皮层下区域的分布均与 DC 受试者有显著差异。
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引用次数: 0
Systematic literature review and meta-analysis for real-world versus clinical validation performance of artificial intelligence applications indicated for ICH and LVO detection 系统性文献综述和荟萃分析:适用于 ICH 和 LVO 检测的人工智能应用在真实世界和临床验证中的表现
Pub Date : 2024-01-01 DOI: 10.1016/j.ibmed.2024.100187
Jason Le , Oisín Butler , Ann-Kathrin Frenz , Ankur Sharma

Purpose

We sought to compare the performance of AI applications in real-world studies to validation study data used to gain regulatory approval.

Methods

We searched PubMed, EBSCO, and EMBASE for publications from 2018 to 2023. We included articles that evaluated the sensitivity and specificity of ICH and LVO detection applications in real-world populations. We performed a quality and applicability assessment using QUADAS-2. We used a bivariate or two univariate meta-analyses, where appropriate, to calculate summary point estimates for sensitivity and specificity.

Results

Eighteen articles met the criteria of the systematic literature review. The included articles evaluated five applications indicated for ICH or LVO triage. Three of the five applications yielded adequate studies to be included in the meta-analysis. For most applications, we did not observe any systematic differences in sensitivity and specificity results between the point estimates from the meta-analysis and the respective 510k studies. For VIZ LVO and RAPID LVO, the 95 % CI for real-world sensitivity sat within the 95 % CI from their respective validation study. For BriefCase ICH, the 95 % CI for real-world sensitivity sat below the 95 % CI of the respective validation study. Additionally, the 95 % CI for real-world specificity for all three of the applications sat within the 95 % CI of their respective validation studies. Data from the individual real-world studies for RAPID ICH and CINA LVO followed a similar trend.

Conclusion

The performance of applications in real-world settings was non-inferior to the performance observed in validation studies used to obtain 510k clearance.
目的我们试图比较人工智能应用在真实世界研究中的表现与用于获得监管部门批准的验证研究数据。方法我们检索了PubMed、EBSCO和EMBASE上2018年至2023年的出版物。我们纳入了评估真实世界人群中 ICH 和 LVO 检测应用灵敏度和特异性的文章。我们使用 QUADAS-2 进行了质量和适用性评估。我们酌情使用双变量或两个单变量荟萃分析来计算灵敏度和特异性的汇总点估计值。纳入的文章评估了五种用于 ICH 或 LVO 分流的应用。在这五种应用中,有三种应用的研究结果足以纳入荟萃分析。对于大多数应用,我们没有观察到荟萃分析的点估计值与相应的 510k 研究之间在灵敏度和特异性结果上存在任何系统性差异。对于 VIZ LVO 和 RAPID LVO,真实世界灵敏度的 95 % CI 位于各自验证研究的 95 % CI 范围内。对于 BriefCase ICH,实际灵敏度的 95 % CI 低于各自验证研究的 95 % CI。此外,所有三种应用的实际特异性的 95 % CI 都在各自验证研究的 95 % CI 范围内。RAPID ICH 和 CINA LVO 的单项真实世界研究数据也呈现类似趋势。
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引用次数: 0
NUC-Fuse: Multimodal medical image fusion using nuclear norm & classification of brain tumors using ARBFN NUC-Fuse:利用核规范进行多模态医学图像融合以及利用 ARBFN 进行脑肿瘤分类
Pub Date : 2024-01-01 DOI: 10.1016/j.ibmed.2024.100181
Shihabudeen H. , Rajeesh J.
Medical imaging has been widely used to diagnose diseases over the past two decades. The lack of information in this field makes it difficult for medical experts to diagnose diseases with a single modality. The combination of image fusion techniques enables the integration of pictures depicting various tissues and disorders from multiple medical imaging devices, facilitating enhanced research and treatment by providing complementary information through multimodal medical imaging fusion. The proposed work employs the nuclear norm and residual connections to combine the complementary features from both CT and MRI imaging approaches. The autoencoder eventually creates a merged image. The fused pictures are categorized as benign or malignant in the following phase using the present Radial Basis Function Network (RBFN). The performance measures, such as Mutual Information, Structural Similarity Index Measure, Qw, and Qe, have shown improved values, specifically 4.6328, 0.6492, 0.8300, and 0.8185 respectively, when compared with different fusion methods. Additionally, the classification algorithm yields 97% accuracy, 89% precision, and 92% recall when combined with the proposed fusion algorithm.
在过去二十年里,医学影像被广泛用于诊断疾病。由于该领域信息匮乏,医学专家很难通过单一方式诊断疾病。结合图像融合技术,可以整合多种医学成像设备中描绘各种组织和疾病的图片,通过多模态医学影像融合提供互补信息,从而促进研究和治疗。拟议的工作采用核常模和残差连接来结合 CT 和 MRI 成像方法的互补特征。自动编码器最终生成合并图像。在下一阶段,利用现有的径向基函数网络(RBFN)对融合后的图像进行良性或恶性分类。与不同的融合方法相比,该算法的互信息、结构相似性指数、Qw 和 Qe 等性能指标都有所提高,具体数值分别为 4.6328、0.6492、0.8300 和 0.8185。此外,当分类算法与建议的融合算法相结合时,准确率为 97%,精确率为 89%,召回率为 92%。
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引用次数: 0
The trend of artificial intelligence application in medicine and neurology; the state-of-the-art systematic scoping review 2010–2022 人工智能在医学和神经学中的应用趋势;2010-2022 年最新系统范围综述
Pub Date : 2024-01-01 DOI: 10.1016/j.ibmed.2024.100179
Mohammad Hossein Abbasi , Melek Somai , Hamidreza Saber

Background

Artificial Intelligence (AI) is an increasingly popular research focus for multiple areas of science. The trend of using AI-based clinical research in different fields of medicine and defining the shortcomings of those trials will guide researchers and future studies.

Methods

We systematically reviewed trials registered in ClinicalTrials.gov that apply AI in clinical research. We explored the trend of AI-applied clinical research and described the design and conduct of such trials. Also, we considered high-quality trials to represent their enrollees’ and other characteristics.

Results

Our search yielded 839 trials involving a direct application of AI, among which 330 (39.3 %) trials were interventional, and the rest were observational (60.7 %). Most of the studies aimed to improve diagnosis (70.2 %); in less than a quarter of trials, management was targeted (22.8 %), and AI was implemented in an acute setting (13 %). Gastrointestinal, cardiovascular, and neurology were the significant fields of medicine with the application of AI in their research. High-quality published AI trials showed good generalizability in terms of their enrollees’ characteristics, with an average age of 52.46 years old and 50.28 % female participants.

Conclusion

The incorporation of AI in different fields of medicine needs to be more balanced, and attempts should be made to broaden the spectrum of AI-based clinical research and to improve its deployment in real-world practice.
背景人工智能(AI)日益成为多个科学领域的研究热点。我们系统地回顾了在 ClinicalTrials.gov 上注册的将人工智能应用于临床研究的试验。我们探讨了人工智能应用于临床研究的趋势,并介绍了此类试验的设计和实施。此外,我们还考虑了高质量的试验,以代表其参与者和其他特征。结果我们的搜索结果显示,有839项试验涉及人工智能的直接应用,其中330项(39.3%)为介入性试验,其余为观察性试验(60.7%)。大多数研究的目的是改善诊断(70.2%);在不到四分之一的试验中,目标管理(22.8%)和人工智能是在急性环境中实施的(13%)。在研究中应用人工智能的医学领域主要是胃肠道、心血管和神经学。已发表的高质量人工智能试验在参与者特征方面显示出良好的普适性,平均年龄为 52.46 岁,女性参与者占 50.28%。
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引用次数: 0
A conceptual IoT framework based on Anova-F feature selection for chronic kidney disease detection using deep learning approach 基于 Anova-F 特征选择的物联网概念框架,利用深度学习方法检测慢性肾病
Pub Date : 2024-01-01 DOI: 10.1016/j.ibmed.2024.100170
Md Morshed Ali, Md Saiful Islam, Mohammed Nasir Uddin, Md. Ashraf Uddin
Chronic kidney disease (CKD) is becoming an increasingly significant health issue, especially in low-income countries where access to affordable treatment is limited. Additionally, CKD is associated with various dietary factors, including liver failure, diabetes, anemia, nerve damage, inflammation, peroxidation, obesity, and other related conditions. Therefore, early prediction of CKD is important to progress the functionality of the kidney. In recent times, IoT has been widely used in a diversity of healthcare sectors through the incorporation of monitoring devices such as digital sensors and medical devices for patient monitoring from remote places. To overcome the problem, this research proposed a conceptual architecture for CKD detection. The sensor layer of the architecture includes IoT devices to collect data and the proposed classifier, MLP (Multi-Layer Perceptron), utilizes the Anova-F feature selection technique to effectively detect CKD (Chronic Kidney Disease). In addition to MLP, four other classifiers including ANN (Artificial Neural Network), Simple RNN (Recurrent Neural Network), GRU (Gated Recurrent Unit), and SVM (Support Vector Machine), are employed for comparative analysis of accuracy. Furthermore, three additional feature selection techniques, namely Chi-squared, SFFS (Sequential Floating Forward Selection), and SBFS (Sequential Backward Floating Selection), are utilized to evaluate their impact on the accuracy of CKD detection. Our proposed method outperforms all other approaches with a remarkable accuracy of 99 % while maintaining efficient computational time. This advancement is crucial in developing a highly accurate machine capable of predicting CKD in remote areas with ease.
慢性肾脏病(CKD)正成为一个日益严重的健康问题,尤其是在低收入国家,因为这些国家获得负担得起的治疗的机会有限。此外,慢性肾脏病还与各种饮食因素有关,包括肝功能衰竭、糖尿病、贫血、神经损伤、炎症、过氧化反应、肥胖和其他相关疾病。因此,早期预测 CKD 对改善肾脏功能非常重要。近来,物联网已被广泛应用于各种医疗保健领域,通过整合监控设备,如数字传感器和医疗设备,实现对患者的远程监控。为解决这一问题,本研究提出了一种用于检测 CKD 的概念性架构。该架构的传感器层包括用于收集数据的物联网设备,而所提出的分类器 MLP(多层感知器)则利用 Anova-F 特征选择技术来有效检测 CKD(慢性肾病)。除 MLP 外,还采用了其他四种分类器,包括 ANN(人工神经网络)、Simple RNN(递归神经网络)、GRU(门控递归单元)和 SVM(支持向量机),以比较分析准确性。此外,还采用了另外三种特征选择技术,即 Chi-squared、SFFS(顺序浮动前向选择)和 SBFS(顺序后向浮动选择),以评估它们对 CKD 检测准确性的影响。我们提出的方法优于所有其他方法,准确率高达 99%,同时保持了高效的计算时间。这一进步对于开发能够轻松预测偏远地区 CKD 的高精度机器至关重要。
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引用次数: 0
A hybrid of supervised and unsupervised deep learning models for multi-vendor kernel conversion of chest CT images 用于胸部 CT 图像多供应商内核转换的有监督和无监督深度学习混合模型
Pub Date : 2024-01-01 DOI: 10.1016/j.ibmed.2024.100169
Yujin Nam , Jooae Choe , Sang Min Lee , Joon Beom Seo , Hyunna Lee

Objective

When reconstructing a computed tomography (CT) volume, different filter kernels can be used to highlight different structures depending on the medical purpose. The aim of this study was to perform CT conversion for intra-/inter-vendor kernel conversion while preserving image quality.

Materials and methods

This study used CT scans from 632 patients who underwent contrast-enhanced chest CT on either a GE or Siemens scanner. Raw data from each CT scan was reconstructed with Standard and Chest kernels of GE or B10f, B30f, B50f, and B70f kernels of Siemens. In intra-vendor, all images reconstructed with one kernel are paired with another kernel, so the U-Net based supervised method was applied. In the case of inter-vendor where the input and target kernels have each different vendor, Siemens' B30f and GE's Standard kernel were trained through unsupervised image-to-image translation using contrastive learning.

Results

In the intra-vendor, quantitative evaluation of the image quality of our model showed reasonable performance on the internal test set (structural similarity index measure (SSIM) > 0.96, peak signal-to-noise ratio (PSNR) > 42.55) compared with the SR-block model (SSIM > 0.93, PSNR > 42.92). In the 6-class classification to evaluate the inter-vendor conversion performance, similar accuracy was shown in the converted image (0.977) compared to the original image (0.998).

Conclusions

In this study, we developed a network that can translate a given CT image into a target kernel among multi-vendors. Our model showed clinically acceptable quality in quantitative and qualitative evaluations, including image quality metrics.
目的在重建计算机断层扫描(CT)容积时,可根据医疗目的使用不同的滤波核来突出不同的结构。本研究的目的是在保持图像质量的前提下,进行 CT 内/供应商间的内核转换。材料和方法本研究使用了 632 名患者的 CT 扫描数据,这些患者在 GE 或西门子扫描仪上进行了对比增强胸部 CT 扫描。每次 CT 扫描的原始数据都使用 GE 的标准和胸部内核或西门子的 B10f、B30f、B50f 和 B70f 内核进行重建。在供应商内部,用一种内核重建的所有图像都与另一种内核配对,因此采用了基于 U-Net 的监督方法。在供应商之间,输入和目标内核分别来自不同的供应商,西门子的 B30f 内核和通用电气的标准内核是通过对比学习进行无监督图像到图像转换训练的。结果在供应商内部,与 SR 块模型(SSIM 为 0.93,PSNR 为 42.92)相比,我们的模型在内部测试集(结构相似性指数(SSIM)为 0.96,峰值信噪比(PSNR)为 42.55)上的图像质量定量评估显示出合理的性能。在评估供应商间转换性能的 6 级分类中,转换后的图像(0.977)与原始图像(0.998)显示出相似的准确性。在定量和定性评估(包括图像质量指标)中,我们的模型显示出临床上可接受的质量。
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引用次数: 0
Machine Learning-aided Computational Fragment-based Design of Small Molecules for Hypertension Treatment 基于机器学习的高血压治疗小分子片段计算设计
Pub Date : 2024-01-01 DOI: 10.1016/j.ibmed.2024.100171
Odifentse Mapula-e Lehasa, Uche A.K. Chude-Okonkwo
With over 1 billion affected adults, hypertension is one of the most critical public health challenges worldwide. If left untreated over time, hypertension increases the likelihood of premature disability or death from cardiovascular diseases. Despite the range of medications available for the treatment of hypertension, many individuals do not respond positively to the treatment. Additionally, a significant percentage of the population does not take the medication as prescribed, which is sometimes attributed to intolerable side effects. Hence, there is still the need to develop new hypertension drugs that provide patients with favourable treatment outcomes. This paper explores the computational method of drug discovery to generate new lead drug molecules for hypertension by targeting the renin-angiotensin-aldosterone system (RAAS). Specifically, we proposed a framework that integrates computational fragment-based methods and an unsupervised machine learning technique to generate new lead Angiotensin-Converting Enzyme Inhibitor (ACEI) and Angiotensin-Receptor Blocker (ARB) molecules. The molecule generation process is initiated using all the approved agents acting on the RAAS that are available in the ChEMBL and DrugBank databases to create a fragment pool. The fragments are used to generate new molecules, which are categorised into ACEI and ARB clusters using unsupervised machine learning techniques. The generated molecules in each category are screened to determine their suitability as oral drug molecules, considering their physicochemical properties. Further screening is performed to determine the molecules’ suitability as ACEIs or ARBs, based on the presence of the appropriate functional groups and their similarities with existing drug molecules. The resultant molecules that passed screening are proposed as new lead antihypertensive agents. A synthesizability test is also performed on the final new lead molecules to determine the ease of making them compared to the original molecules.
有超过 10 亿成年人受到高血压的影响,高血压是全球最严峻的公共卫生挑战之一。如果长期得不到治疗,高血压会增加心血管疾病导致过早残疾或死亡的可能性。尽管治疗高血压的药物种类繁多,但许多人对治疗并不积极。此外,还有相当一部分人没有按照医嘱服药,这有时是由于无法忍受的副作用造成的。因此,仍有必要开发新的高血压药物,为患者提供良好的治疗效果。本文探讨了药物发现的计算方法,以通过靶向肾素-血管紧张素-醛固酮系统(RAAS)产生治疗高血压的新先导药物分子。具体来说,我们提出了一个框架,该框架整合了基于计算片段的方法和无监督机器学习技术,以生成新的先导血管紧张素转换酶抑制剂(ACEI)和血管紧张素受体阻断剂(ARB)分子。分子生成过程使用 ChEMBL 和 DrugBank 数据库中所有已批准的作用于 RAAS 的药物来创建片段池。这些片段用于生成新分子,并利用无监督机器学习技术将其分为 ACEI 和 ARB 两类。对每个类别中生成的分子进行筛选,以确定它们是否适合作为口服药物分子,同时考虑到它们的物理化学特性。根据适当官能团的存在及其与现有药物分子的相似性,进行进一步筛选,以确定分子是否适合用作 ACEI 或 ARB。通过筛选的分子将被推荐作为新的先导抗高血压药物。此外,还对最终的新先导分子进行了可合成性测试,以确定与原始分子相比,制造这些分子的难易程度。
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引用次数: 0
Heterogenous analysis of KeyBERT, BERTopic, PyCaret and LDAs methods: P53 in ovarian cancer use case KeyBERT、BERTopic、PyCaret 和 LDAs 方法的异质性分析:卵巢癌中的 P53 使用案例
Pub Date : 2024-01-01 DOI: 10.1016/j.ibmed.2024.100182
R.O. Oveh , M. Adewunmi , A.O. Solomon , K.Y. Christopher , P.N. Ezeobi
In recent times, researchers with Computational background have found it easier to relate to Artificial Intelligence with the advancement of the transformer model, and unstructured medical data. This paper explores the heterogeneity of keyBERT, BERTopic, PyCaret and LDAs as key phrase generators and topic model extractors with P53 in ovarian cancer as a use case. PubMed abstract on mutant p53 was first extracted with the Entrez-global database and then preprocessed with Natural Toolkit (NLTK). keyBERT was then used for extracting keyphrases, and BERTopic modelling was used for extracting the related themes. PyCaret was further used for unigram topics and LDAs for examining the interaction among the topics in the word corpus. Lastly, Jaccard similarity index was used to check the similarity among the four methods. The results showed no relationship exists with KeyBERT, having a score of 0.0 while relationship exists among the three other topic models with score of 0.095, 0.235, 0.4 and 0.111. Based on the result, it was observed that keywords, keyphrases, similar topics, and entities embedded in the data use a closely related framework, which can give insights into medical data before modelling.
近来,具有计算背景的研究人员发现,随着转换器模型和非结构化医疗数据的发展,与人工智能建立联系变得更加容易。本文以卵巢癌 P53 为例,探讨了 keyBERT、BERTopic、PyCaret 和 LDA 作为关键短语生成器和主题模型提取器的异质性。首先使用 Entrez-global 数据库提取有关突变 p53 的 PubMed 摘要,然后使用 Natural Toolkit (NLTK) 进行预处理。PyCaret 用于单字符主题,LDA 用于检查词库中主题之间的交互。最后,使用 Jaccard 相似性指数检查四种方法之间的相似性。结果显示,KeyBERT 与其他三种主题模型之间不存在任何关系,得分为 0.0,而其他三种主题模型之间存在关系,得分为 0.095、0.235、0.4 和 0.111。根据结果可以看出,数据中的关键词、关键短语、相似主题和实体使用了一个密切相关的框架,这可以在建模前对医疗数据进行深入分析。
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引用次数: 0
Cycle Generative Adversarial Aetwork approach for normalization of Gram-stain images for bacteria detection 用于细菌检测的革兰氏染色图像规范化的循环生成对抗网络方法
Pub Date : 2024-01-01 DOI: 10.1016/j.ibmed.2024.100138
V. Shwetha , Keerthana Prasad , Chiranjay Mukhopadhyay , Barnini Banerjee

The Gram staining method is one of the most effective morphological identification procedures for detecting bacteria from direct smear microscopy. This staining process is inexpensive. It aids in diagnosing bacterial infections quickly as it is used for direct clinical sample specimens such as pus, urine, and sputum. The computer-aided diagnostic system aids the clinician by avoiding tedious manual evaluation procedures. However, images captured often suffer from contrast, illumination, and stain variations due to various camera settings and situations. These differences are due to image acquisition conditions, sample quality, and poor staining procedures. These variations affect the diagnosis process, lowering the image analysis performance of the computer-aided diagnosis system. In this context, the present work proposes a novel color normalization approach based on a Cycle Generative Adversarial Network(GAN). We introduce a novel normalization loss function, Lcycm, which is integrated into our dedicated normalization loss, LN, within the framework of Cycle GAN(CGAN). The proposed method is compared with the state-of-the-art normalization algorithms qualitatively and quantitatively using the KMC dataset. In addition, the study demonstrates the impact of normalization on the Convolutional Neural Network (CNN) -based segmentation and classification process. Furthermore, a bacteria detection framework is proposed based on the U2Net segmentation model and a CNN classifier. The proposed normalization achieved an SSIM score of 0.93 ± 0.07 and PSNR of 29 ± 3.7. The accuracy of the CNN-based classifier improved by 40 % after normalization.

革兰氏染色法是直接涂片显微镜检测细菌最有效的形态鉴定程序之一。这种染色方法成本低廉。它可用于脓液、尿液和痰液等直接临床样本标本,有助于快速诊断细菌感染。计算机辅助诊断系统可帮助临床医生避免繁琐的人工评估程序。然而,由于相机设置和环境的不同,采集到的图像往往在对比度、光照和染色方面存在差异。这些差异是由图像采集条件、样本质量和不良染色程序造成的。这些差异会影响诊断过程,降低计算机辅助诊断系统的图像分析性能。在此背景下,本研究提出了一种基于循环生成对抗网络(GAN)的新型颜色归一化方法。我们在循环生成对抗网络(CGAN)的框架内引入了一个新的归一化损失函数 Lcycm,并将其集成到我们专用的归一化损失 LN 中。我们使用 KMC 数据集将所提出的方法与最先进的归一化算法进行了定性和定量比较。此外,研究还展示了归一化对基于卷积神经网络(CNN)的分割和分类过程的影响。此外,还提出了一个基于 U2Net 分割模型和 CNN 分类器的细菌检测框架。所提出的规范化方法的 SSIM 得分为 0.93 ± 0.07,PSNR 为 29 ± 3.7。归一化后,基于 CNN 的分类器的准确率提高了 40%。
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Intelligence-based medicine
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