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Editorial: Addressing large scale computing challenges in neuroscience: current advances and future directions. 社论:解决神经科学中的大规模计算挑战:当前进展和未来方向。
IF 2.5 4区 医学 Q2 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2024-12-17 eCollection Date: 2024-01-01 DOI: 10.3389/fninf.2024.1534396
Tam V Nguyen, Min Wang, Domenico Maisto
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引用次数: 0
Editorial: Improving autism spectrum disorder diagnosis using machine learning techniques. 社论:利用机器学习技术改进自闭症谱系障碍的诊断。
IF 2.5 4区 医学 Q2 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2024-12-06 eCollection Date: 2024-01-01 DOI: 10.3389/fninf.2024.1529839
Mahmoud Elbattah, Osman Ali Sadek Ibrahim, Gilles Dequen
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引用次数: 0
Unsupervised method for representation transfer from one brain to another. 无监督的表征方法从一个大脑转移到另一个大脑。
IF 2.5 4区 医学 Q2 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2024-11-28 eCollection Date: 2024-01-01 DOI: 10.3389/fninf.2024.1470845
Daiki Nakamura, Shizuo Kaji, Ryota Kanai, Ryusuke Hayashi

Although the anatomical arrangement of brain regions and the functional structures within them are similar across individuals, the representation of neural information, such as recorded brain activity, varies among individuals owing to various factors. Therefore, appropriate conversion and translation of brain information is essential when decoding neural information using a model trained using another person's data or to achieving brain-to-brain communication. We propose a brain representation transfer method that involves transforming a data representation obtained from one person's brain into that obtained from another person's brain, without relying on corresponding label information between the transferred datasets. We defined the requirements to enable such brain representation transfer and developed an algorithm that distills the assumption of common similarity structure across the brain datasets into a rotational and reflectional transformation across low-dimensional hyperspheres using encoders for non-linear dimensional reduction. We first validated our proposed method using data from artificial neural networks as substitute neural activity and examining various experimental factors. We then evaluated the applicability of our method to real brain activity using functional magnetic resonance imaging response data acquired from human participants. The results of these validation experiments showed that our method successfully performed representation transfer and achieved transformations in some cases that were similar to those obtained when using corresponding label information. Additionally, we reconstructed images from individuals' data without training personalized decoders by performing brain representation transfer. The results suggest that our unsupervised transfer method is useful for the reapplication of existing models personalized to specific participants and datasets to decode brain information from other individuals. Our findings also serve as a proof of concept for the methodology, enabling the exchange of the latent properties of neural information representing individuals' sensations.

虽然不同个体的大脑区域解剖结构和其中的功能结构相似,但由于各种因素,神经信息(如记录的大脑活动)在个体间的表现形式却各不相同。因此,在使用他人数据训练的模型解码神经信息或实现脑对脑交流时,对大脑信息进行适当的转换和翻译至关重要。我们提出了一种大脑表征转换方法,即把从一个人大脑中获得的数据表征转换成从另一个人大脑中获得的数据表征,而不依赖于转换数据集之间的相应标签信息。我们定义了实现这种大脑表征转换的要求,并开发了一种算法,利用编码器进行非线性降维,将大脑数据集之间的共同相似性结构假设提炼为低维超球的旋转和反射转换。我们首先使用人工神经网络的数据作为替代神经活动,并检查了各种实验因素,验证了我们提出的方法。然后,我们利用从人类参与者那里获得的功能性磁共振成像反应数据,评估了我们的方法对真实大脑活动的适用性。这些验证实验的结果表明,我们的方法成功地进行了表征转移,并在某些情况下实现了与使用相应标签信息时相似的转换。此外,我们还通过进行大脑表征转移,在不训练个性化解码器的情况下从个人数据中重建了图像。结果表明,我们的无监督转移方法有助于将现有的针对特定参与者和数据集的个性化模型重新应用于解码其他个体的大脑信息。我们的研究结果也证明了这一方法的概念,它可以交换代表个人感觉的神经信息的潜在属性。
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引用次数: 0
Enhanced brain tumor diagnosis using combined deep learning models and weight selection technique. 结合深度学习模型和权重选择技术增强脑肿瘤诊断。
IF 2.5 4区 医学 Q2 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2024-11-26 eCollection Date: 2024-01-01 DOI: 10.3389/fninf.2024.1444650
Karim Gasmi, Najib Ben Aoun, Khalaf Alsalem, Ibtihel Ben Ltaifa, Ibrahim Alrashdi, Lassaad Ben Ammar, Manel Mrabet, Abdulaziz Shehab

Brain tumor classification is a critical task in medical imaging, as accurate diagnosis directly influences treatment planning and patient outcomes. Traditional methods often fall short in achieving the required precision due to the complex and heterogeneous nature of brain tumors. In this study, we propose an innovative approach to brain tumor multi-classification by leveraging an ensemble learning method that combines advanced deep learning models with an optimal weighting strategy. Our methodology integrates Vision Transformers (ViT) and EfficientNet-V2 models, both renowned for their powerful feature extraction capabilities in medical imaging. This model enhances the feature extraction step by capturing both global and local features, thanks to the combination of different deep learning models with the ViT model. These models are then combined using a weighted ensemble approach, where each model's prediction is assigned a weight. To optimize these weights, we employ a genetic algorithm, which iteratively selects the best weight combinations to maximize classification accuracy. We trained and validated our ensemble model using a well-curated dataset comprising labeled brain MRI images. The model's performance was benchmarked against standalone ViT and EfficientNet-V2 models, as well as other traditional classifiers. The ensemble approach achieved a notable improvement in classification accuracy, precision, recall, and F1-score compared to individual models. Specifically, our model attained an accuracy rate of 95%, significantly outperforming existing methods. This study underscores the potential of combining advanced deep learning models with a genetic algorithm-optimized weighting strategy to tackle complex medical classification tasks. The enhanced diagnostic precision offered by our ensemble model can lead to better-informed clinical decisions, ultimately improving patient outcomes. Furthermore, our approach can be generalized to other medical imaging classification problems, paving the way for broader applications of AI in healthcare. This advancement in brain tumor classification contributes valuable insights to the field of medical AI, supporting the ongoing efforts to integrate advanced computational tools in clinical practice.

脑肿瘤分类是医学影像学中的一项关键任务,因为准确的诊断直接影响治疗计划和患者的预后。由于脑肿瘤的复杂性和异质性,传统方法往往无法达到所需的精度。在这项研究中,我们提出了一种创新的脑肿瘤多分类方法,利用集成学习方法,将先进的深度学习模型与最优加权策略相结合。我们的方法集成了视觉变形器(ViT)和高效网络- v2模型,两者都以其强大的医学成像特征提取能力而闻名。由于将不同的深度学习模型与ViT模型相结合,该模型通过捕获全局和局部特征来增强特征提取步骤。然后使用加权集成方法将这些模型组合在一起,其中每个模型的预测被分配一个权重。为了优化这些权重,我们采用了一种遗传算法,该算法迭代地选择最佳的权重组合以最大化分类精度。我们使用包含标记脑MRI图像的精心策划的数据集来训练和验证我们的集成模型。该模型的性能与独立的ViT和EfficientNet-V2模型以及其他传统分类器进行了基准测试。与单个模型相比,集成方法在分类准确度、精度、召回率和f1分数方面取得了显著的进步。具体来说,我们的模型达到了95%的准确率,显著优于现有的方法。这项研究强调了将先进的深度学习模型与遗传算法优化的加权策略相结合来解决复杂的医学分类任务的潜力。我们的集成模型提供的更高的诊断精度可以导致更明智的临床决策,最终改善患者的预后。此外,我们的方法可以推广到其他医学成像分类问题,为人工智能在医疗保健领域的更广泛应用铺平了道路。脑肿瘤分类的这一进展为医疗人工智能领域提供了有价值的见解,支持了将先进计算工具整合到临床实践中的持续努力。
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引用次数: 0
Editorial: Reproducible analysis in neuroscience. 社论:神经科学中的可重复性分析。
IF 2.5 4区 医学 Q2 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2024-11-26 eCollection Date: 2024-01-01 DOI: 10.3389/fninf.2024.1520012
Stavros I Dimitriadis, Vignayanandam Ravindernath Muddapu, Roberto Guidotti
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引用次数: 0
Systems Neuroscience Computing in Python (SyNCoPy): a python package for large-scale analysis of electrophysiological data. 系统神经科学计算在Python (SyNCoPy):一个Python包的电生理数据的大规模分析。
IF 2.5 4区 医学 Q2 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2024-11-20 eCollection Date: 2024-01-01 DOI: 10.3389/fninf.2024.1448161
Gregor Mönke, Tim Schäfer, Mohsen Parto-Dezfouli, Diljit Singh Kajal, Stefan Fürtinger, Joscha Tapani Schmiedt, Pascal Fries

We introduce an open-source Python package for the analysis of large-scale electrophysiological data, named SyNCoPy, which stands for Systems Neuroscience Computing in Python. The package includes signal processing analyses across time (e.g., time-lock analysis), frequency (e.g., power spectrum), and connectivity (e.g., coherence) domains. It enables user-friendly data analysis on both laptop-based and high-performance computing systems. SyNCoPy is designed to facilitate trial-parallel workflows (parallel processing of trials), making it an ideal tool for large-scale analysis of electrophysiological data. Based on parallel processing of trials, the software can support very large-scale datasets via innovative out-of-core computation techniques. It also provides seamless interoperability with other standard software packages through a range of file format importers and exporters and open file formats. The naming of the user functions closely follows the well-established FieldTrip framework, which is an open-source MATLAB toolbox for advanced analysis of electrophysiological data.

我们介绍了一个用于分析大规模电生理数据的开源Python包,名为SyNCoPy,它代表Python中的系统神经科学计算。该软件包包括跨时间(例如,时间锁分析)、频率(例如,功率谱)和连接(例如,相干)域的信号处理分析。它支持在基于笔记本电脑和高性能计算系统上进行用户友好的数据分析。SyNCoPy旨在促进试验并行工作流程(并行处理试验),使其成为电生理数据大规模分析的理想工具。基于试验的并行处理,该软件可以通过创新的核外计算技术支持非常大规模的数据集。它还通过一系列文件格式导入和导出以及打开文件格式,提供了与其他标准软件包的无缝互操作性。用户函数的命名密切遵循完善的FieldTrip框架,这是一个开源的MATLAB工具箱,用于电生理数据的高级分析。
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引用次数: 0
Enhancing human activity recognition for the elderly and individuals with disabilities through optimized Internet-of-Things and artificial intelligence integration with advanced neural networks. 通过优化物联网和人工智能与先进神经网络的融合,增强老年人和残疾人的人类活动识别。
IF 2.5 4区 医学 Q2 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2024-11-19 eCollection Date: 2024-01-01 DOI: 10.3389/fninf.2024.1454583
R Deeptha, K Ramkumar, Sri Venkateswaran, Mohammad Mehedi Hassan, Md Rafiul Hassan, Farzan M Noori, Md Zia Uddin

Elderly and individuals with disabilities can greatly benefit from human activity recognition (HAR) systems, which have recently advanced significantly due to the integration of the Internet of Things (IoT) and artificial intelligence (AI). The blending of IoT and AI methodologies into HAR systems has the potential to enable these populations to lead more autonomous and comfortable lives. HAR systems are equipped with various sensors, including motion capture sensors, microcontrollers, and transceivers, which supply data to assorted AI and machine learning (ML) algorithms for subsequent analyses. Despite the substantial advantages of this integration, current frameworks encounter significant challenges related to computational overhead, which arises from the complexity of AI and ML algorithms. This article introduces a novel ensemble of gated recurrent networks (GRN) and deep extreme feedforward neural networks (DEFNN), with hyperparameters optimized through the artificial water drop optimization (AWDO) algorithm. This framework leverages GRN for effective feature extraction, subsequently utilized by DEFNN for accurately classifying HAR data. Additionally, AWDO is employed within DEFNN to adjust hyperparameters, thereby mitigating computational overhead and enhancing detection efficiency. Extensive experiments were conducted to verify the proposed methodology using real-time datasets gathered from IoT testbeds, which employ NodeMCU units interfaced with Wi-Fi transceivers. The framework's efficiency was assessed using several metrics: accuracy at 99.5%, precision at 98%, recall at 97%, specificity at 98%, and F1-score of 98.2%. These results then were benchmarked against other contemporary deep learning (DL)-based HAR systems. The experimental outcomes indicate that our model achieves near-perfect accuracy, surpassing alternative learning-based HAR systems. Moreover, our model demonstrates reduced computational demands compared to preceding algorithms, suggesting that the proposed framework may offer superior efficacy and compatibility for deployment in HAR systems designed for elderly or individuals with disabilities.

由于物联网(IoT)和人工智能(AI)的融合,人类活动识别(HAR)系统最近取得了重大进展,老年人和残疾人可以从该系统中受益匪浅。将物联网和人工智能方法融合到HAR系统中,有可能使这些人群过上更加自主和舒适的生活。HAR系统配备了各种传感器,包括动作捕捉传感器、微控制器和收发器,为各种人工智能和机器学习(ML)算法提供数据,供后续分析。尽管这种集成具有巨大的优势,但当前的框架遇到了与计算开销相关的重大挑战,这源于人工智能和机器学习算法的复杂性。本文介绍了一种新的门控循环网络(GRN)和深度极值前馈神经网络(DEFNN)的集成,并通过人工水滴优化(AWDO)算法对超参数进行了优化。该框架利用GRN进行有效的特征提取,随后由DEFNN用于准确分类HAR数据。此外,在DEFNN中使用AWDO来调整超参数,从而减少计算开销并提高检测效率。通过使用从物联网测试平台收集的实时数据集,进行了广泛的实验来验证所提出的方法,该测试平台使用NodeMCU单元与Wi-Fi收发器接口。使用几个指标评估框架的效率:准确率为99.5%,准确率为98%,召回率为97%,特异性为98%,f1评分为98.2%。然后将这些结果与其他当代基于深度学习(DL)的HAR系统进行基准测试。实验结果表明,我们的模型达到了近乎完美的精度,超过了其他基于学习的HAR系统。此外,与之前的算法相比,我们的模型显示了更少的计算需求,这表明所提出的框架可能在为老年人或残疾人设计的HAR系统中提供更好的功效和兼容性。
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引用次数: 0
Quantitative assessment of neurodevelopmental maturation: a comprehensive systematic literature review of artificial intelligence-based brain age prediction in pediatric populations. 神经发育成熟度的定量评估:基于人工智能的儿科人群脑年龄预测的全面系统文献综述。
IF 2.5 4区 医学 Q2 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2024-11-12 eCollection Date: 2024-01-01 DOI: 10.3389/fninf.2024.1496143
Eric Dragendorf, Eva Bültmann, Dominik Wolff

Introduction: Over the past few decades, numerous researchers have explored the application of machine learning for assessing children's neurological development. Developmental changes in the brain could be utilized to gauge the alignment of its maturation status with the child's chronological age. AI is trained to analyze changes in different modalities and estimate the brain age of subjects. Disparities between the predicted and chronological age can be viewed as a biomarker for a pathological condition. This literature review aims to illuminate research studies that have employed AI to predict children's brain age.

Methods: The inclusion criteria for this study were predicting brain age via AI in healthy children up to 12 years. The search term was centered around the keywords "pediatric," "artificial intelligence," and "brain age" and was utilized in PubMed and IEEEXplore. The selected literature was then examined for information on data acquisition methods, the age range of the study population, pre-processing, methods and AI techniques utilized, the quality of the respective techniques, model explanation, and clinical applications.

Results: Fifty one publications from 2012 to 2024 were included in the analysis. The primary modality of data acquisition was MRI, followed by EEG. Structural and functional MRI-based studies commonly used publicly available datasets, while EEG-based studies typically relied on self-recruitment. Many studies utilized pre-processing pipelines provided by toolkit suites, particularly in MRI-based research. The most frequently used model type was kernel-based learning algorithms, followed by convolutional neural networks. Overall, prediction accuracy may improve when multiple acquisition modalities are used, but comparing studies is challenging. In EEG, the prediction error decreases as the number of electrodes increases. Approximately one-third of the studies used explainable artificial intelligence methods to explain the model and chosen parameters. However, there is a significant clinical translation gap as no study has tested their model in a clinical routine setting.

Discussion: Further research should test on external datasets and include low-quality routine images for MRI. T2-weighted MRI was underrepresented. Furthermore, different kernel types should be compared on the same dataset. Implementing modern model architectures, such as convolutional neural networks, should be the next step in EEG-based research studies.

简介在过去的几十年里,许多研究人员都在探索如何应用机器学习来评估儿童的神经系统发育。大脑的发育变化可以用来衡量其成熟状态与儿童的实际年龄是否一致。人工智能经过训练,可以分析不同模式的变化,并估算受试者的大脑年龄。预测年龄与实际年龄之间的差异可被视为病理状况的生物标记。本文献综述旨在阐明采用人工智能预测儿童脑年龄的研究:本研究的纳入标准是通过人工智能预测 12 岁以下健康儿童的脑年龄。搜索关键词围绕 "儿科"、"人工智能 "和 "脑年龄",并使用 PubMed 和 IEEEXplore。然后对所选文献进行检查,以了解数据采集方法、研究人群的年龄范围、预处理、所使用的方法和人工智能技术、相关技术的质量、模型解释和临床应用等信息:本次分析共收录了 2012 年至 2024 年间发表的 51 篇论文。数据采集的主要方式是磁共振成像,其次是脑电图。基于结构和功能磁共振成像的研究通常使用公开的数据集,而基于脑电图的研究通常依赖于自我招募。许多研究利用了工具包套件提供的预处理管道,尤其是在基于核磁共振成像的研究中。最常用的模型类型是基于核的学习算法,其次是卷积神经网络。总体而言,当使用多种采集模式时,预测准确率可能会有所提高,但对研究进行比较具有挑战性。在脑电图中,预测误差随着电极数量的增加而减小。大约三分之一的研究使用了可解释的人工智能方法来解释模型和所选参数。然而,由于没有一项研究在临床常规环境中测试过他们的模型,因此在临床转化方面还存在很大差距:讨论:进一步的研究应在外部数据集上进行测试,并纳入低质量的核磁共振常规图像。T2加权核磁共振成像的代表性不足。此外,还应在同一数据集上比较不同的内核类型。在基于脑电图的研究中,下一步应采用卷积神经网络等现代模型架构。
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引用次数: 0
Spectral graph convolutional neural network for Alzheimer's disease diagnosis and multi-disease categorization from functional brain changes in magnetic resonance images. 光谱图卷积神经网络用于从磁共振图像中的大脑功能变化诊断阿尔茨海默病和多种疾病分类。
IF 2.5 4区 医学 Q2 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2024-10-30 eCollection Date: 2024-01-01 DOI: 10.3389/fninf.2024.1495571
Hadeel Alharbi, Roben A Juanatas, Abdullah Al Hejaili, Se-Jung Lim

Alzheimer's disease (AD) is a progressive neurological disorder characterized by the gradual deterioration of cognitive functions, leading to dementia and significantly impacting the quality of life for millions of people worldwide. Early and accurate diagnosis is crucial for the effective management and treatment of this debilitating condition. This study introduces a novel framework based on Spectral Graph Convolutional Neural Networks (SGCNN) for diagnosing AD and categorizing multiple diseases through the analysis of functional changes in brain structures captured via magnetic resonance imaging (MRI). To assess the effectiveness of our approach, we systematically analyze structural modifications to the SGCNN model through comprehensive ablation studies. The performance of various Convolutional Neural Networks (CNNs) is also evaluated, including SGCNN variants, Base CNN, Lean CNN, and Deep CNN. We begin with the original SGCNN model, which serves as our baseline and achieves a commendable classification accuracy of 93%. In our investigation, we perform two distinct ablation studies on the SGCNN model to examine how specific structural changes impact its performance. The results reveal that Ablation Model 1 significantly enhances accuracy, achieving an impressive 95%, while Ablation Model 2 maintains the baseline accuracy of 93%. Additionally, the Base CNN model demonstrates strong performance with a classification accuracy of 93%, whereas both the Lean CNN and Deep CNN models achieve 94% accuracy, indicating their competitive capabilities. To validate the models' effectiveness, we utilize multiple evaluation metrics, including accuracy, precision, recall, and F1-score, ensuring a thorough assessment of their performance. Our findings underscore that Ablation Model 1 (SGCNN Model 1) delivers the highest predictive accuracy among the tested models, highlighting its potential as a robust approach for Alzheimer's image classification. Ultimately, this research aims to facilitate early diagnosis and treatment of AD, contributing to improved patient outcomes and advancing the field of neurodegenerative disease diagnosis.

阿尔茨海默病(AD)是一种渐进性神经系统疾病,其特点是认知功能逐渐退化,导致痴呆,严重影响全球数百万人的生活质量。早期准确的诊断对于有效管理和治疗这种使人衰弱的疾病至关重要。本研究介绍了一种基于谱图卷积神经网络(SGCNN)的新型框架,通过分析磁共振成像(MRI)捕捉到的大脑结构的功能变化,诊断痴呆症并对多种疾病进行分类。为了评估我们方法的有效性,我们通过全面的消融研究系统地分析了对 SGCNN 模型的结构修改。我们还评估了各种卷积神经网络(CNN)的性能,包括 SGCNN 变体、Base CNN、Lean CNN 和 Deep CNN。我们从原始 SGCNN 模型开始,该模型是我们的基准模型,分类准确率高达 93%,值得称赞。在研究中,我们对 SGCNN 模型进行了两次不同的消融研究,以考察特定的结构变化对其性能的影响。结果显示,消融模型 1 显著提高了准确率,达到了令人印象深刻的 95%,而消融模型 2 则保持了 93% 的基线准确率。此外,Base CNN 模型表现强劲,分类准确率达到 93%,而 Lean CNN 和 Deep CNN 模型的准确率均达到 94%,这表明它们具有很强的竞争力。为了验证模型的有效性,我们采用了多种评估指标,包括准确率、精确度、召回率和 F1 分数,以确保对其性能进行全面评估。我们的研究结果表明,在所测试的模型中,消融模型 1(SGCNN 模型 1)的预测准确率最高,凸显了其作为阿尔茨海默氏症图像分类的稳健方法的潜力。这项研究的最终目的是促进阿尔茨海默病的早期诊断和治疗,改善患者的预后,推动神经退行性疾病诊断领域的发展。
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引用次数: 0
Commentary: Accelerating spiking neural network simulations with PymoNNto and PymoNNtorch. 评论:利用 PymoNNto 和 PymoNNtorch 加速尖峰神经网络仿真
IF 2.5 4区 医学 Q2 MATHEMATICAL & COMPUTATIONAL BIOLOGY Pub Date : 2024-10-23 eCollection Date: 2024-01-01 DOI: 10.3389/fninf.2024.1446620
Hans Ekkehard Plesser
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引用次数: 0
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