Frontiers in Neuroinformatics最新文献

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A computational model of Alzheimer's disease at the nano, micro, and macroscales 阿尔茨海默氏症的纳米、微观和宏观计算模型
IF 3.5 4区 医学
Frontiers in Neuroinformatics Pub Date : 2024-03-22 DOI: 10.3389/fninf.2024.1348113
Éléonore Chamberland, Seyedadel Moravveji, Nicolas Doyon, Simon Duchesne
{"title":"A computational model of Alzheimer's disease at the nano, micro, and macroscales","authors":"Éléonore Chamberland, Seyedadel Moravveji, Nicolas Doyon, Simon Duchesne","doi":"10.3389/fninf.2024.1348113","DOIUrl":"https://doi.org/10.3389/fninf.2024.1348113","url":null,"abstract":"IntroductionMathematical models play a crucial role in investigating complex biological systems, enabling a comprehensive understanding of interactions among various components and facilitating <jats:italic>in silico</jats:italic> testing of intervention strategies. Alzheimer's disease (AD) is characterized by multifactorial causes and intricate interactions among biological entities, necessitating a personalized approach due to the lack of effective treatments. Therefore, mathematical models offer promise as indispensable tools in combating AD. However, existing models in this emerging field often suffer from limitations such as inadequate validation or a narrow focus on single proteins or pathways.MethodsIn this paper, we present a multiscale mathematical model that describes the progression of AD through a system of 19 ordinary differential equations. The equations describe the evolution of proteins (nanoscale), cell populations (microscale), and organ-level structures (macroscale) over a 50-year lifespan, as they relate to amyloid and tau accumulation, inflammation, and neuronal death.ResultsDistinguishing our model is a robust foundation in biological principles, ensuring improved justification for the included equations, and rigorous parameter justification derived from published experimental literature.ConclusionThis model represents an essential initial step toward constructing a predictive framework, which holds significant potential for identifying effective therapeutic targets in the fight against AD.","PeriodicalId":12462,"journal":{"name":"Frontiers in Neuroinformatics","volume":"84 1","pages":""},"PeriodicalIF":3.5,"publicationDate":"2024-03-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140203033","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Epileptic seizure prediction based on EEG using pseudo-three-dimensional CNN 利用伪三维 CNN 基于脑电图预测癫痫发作
IF 3.5 4区 医学
Frontiers in Neuroinformatics Pub Date : 2024-03-19 DOI: 10.3389/fninf.2024.1354436
Xin Liu, Chunyang Li, Xicheng Lou, Haohuan Kong, Xinwei Li, Zhangyong Li, Lisha Zhong
{"title":"Epileptic seizure prediction based on EEG using pseudo-three-dimensional CNN","authors":"Xin Liu, Chunyang Li, Xicheng Lou, Haohuan Kong, Xinwei Li, Zhangyong Li, Lisha Zhong","doi":"10.3389/fninf.2024.1354436","DOIUrl":"https://doi.org/10.3389/fninf.2024.1354436","url":null,"abstract":"Epileptic seizures are characterized by their sudden and unpredictable nature, posing significant risks to a patient’s daily life. Accurate and reliable seizure prediction systems can provide alerts before a seizure occurs, as well as give the patient and caregivers provider enough time to take appropriate measure. This study presents an effective seizure prediction method based on deep learning that combine with handcrafted features. The handcrafted features were selected by Max-Relevance and Min-Redundancy (mRMR) to obtain the optimal set of features. To extract the epileptic features from the fused multidimensional structure, we designed a P3D-BiConvLstm3D model, which is a combination of pseudo-3D convolutional neural network (P3DCNN) and bidirectional convolutional long short-term memory 3D (BiConvLstm3D). We also converted EEG signals into a multidimensional structure that fused spatial, manual features, and temporal information. The multidimensional structure is then fed into a P3DCNN to extract spatial and manual features and feature-to-feature dependencies, followed by a BiConvLstm3D input to explore temporal dependencies while preserving the spatial features, and finally, a channel attention mechanism is implemented to emphasize the more representative information in the multichannel output. The proposed has an average accuracy of 98.13%, an average sensitivity of 98.03%, an average precision of 98.30% and an average specificity of 98.23% for the CHB-MIT scalp EEG database. A comparison of the proposed model with other baseline methods was done to confirm the better performance of features through time–space nonlinear feature fusion. The results show that the proposed P3DCNN-BiConvLstm3D-Attention3D method for epilepsy prediction by time–space nonlinear feature fusion is effective.","PeriodicalId":12462,"journal":{"name":"Frontiers in Neuroinformatics","volume":"22 1","pages":""},"PeriodicalIF":3.5,"publicationDate":"2024-03-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140166033","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Automated analysis and detection of epileptic seizures in video recordings using artificial intelligence 利用人工智能自动分析和检测视频记录中的癫痫发作
IF 3.5 4区 医学
Frontiers in Neuroinformatics Pub Date : 2024-03-15 DOI: 10.3389/fninf.2024.1324981
Pragya Rai, Andrew Knight, Matias Hiillos, Csaba Kertész, Elizabeth Morales, Daniella Terney, Sidsel Armand Larsen, Tim Østerkjerhuus, Jukka Peltola, Sándor Beniczky
{"title":"Automated analysis and detection of epileptic seizures in video recordings using artificial intelligence","authors":"Pragya Rai, Andrew Knight, Matias Hiillos, Csaba Kertész, Elizabeth Morales, Daniella Terney, Sidsel Armand Larsen, Tim Østerkjerhuus, Jukka Peltola, Sándor Beniczky","doi":"10.3389/fninf.2024.1324981","DOIUrl":"https://doi.org/10.3389/fninf.2024.1324981","url":null,"abstract":"IntroductionAutomated seizure detection promises to aid in the prevention of SUDEP and improve the quality of care by assisting in epilepsy diagnosis and treatment adjustment.MethodsIn this phase 2 exploratory study, the performance of a contactless, marker-free, video-based motor seizure detection system is assessed, considering video recordings of patients (age 0–80 years), in terms of sensitivity, specificity, and Receiver Operating Characteristic (ROC) curves, with respect to video-electroencephalographic monitoring (VEM) as the medical gold standard. Detection performances of five categories of motor epileptic seizures (tonic–clonic, hyperkinetic, tonic, unclassified motor, automatisms) and psychogenic non-epileptic seizures (PNES) with a motor behavioral component lasting for &amp;gt;10 s were assessed independently at different detection thresholds (rather than as a categorical classification problem). A total of 230 patients were recruited in the study, of which 334 in-scope (&amp;gt;10 s) motor seizures (out of 1,114 total seizures) were identified by VEM reported from 81 patients. We analyzed both daytime and nocturnal recordings. The control threshold was evaluated at a range of values to compare the sensitivity (<jats:italic>n</jats:italic> = 81 subjects with seizures) and false detection rate (FDR) (<jats:italic>n</jats:italic> = all 230 subjects).ResultsAt optimal thresholds, the performance of seizure groups in terms of sensitivity (CI) and FDR/h (CI): tonic–clonic- 95.2% (82.4, 100%); 0.09 (0.077, 0.103), hyperkinetic- 92.9% (68.5, 98.7%); 0.64 (0.59, 0.69), tonic- 78.3% (64.4, 87.7%); 5.87 (5.51, 6.23), automatism- 86.7% (73.5, 97.7%); 3.34 (3.12, 3.58), unclassified motor seizures- 78% (65.4, 90.4%); 4.81 (4.50, 5.14), and PNES- 97.7% (97.7, 100%); 1.73 (1.61, 1.86). A generic threshold recommended for all motor seizures under study asserted 88% sensitivity and 6.48 FDR/h.DiscussionThese results indicate an achievable performance for major motor seizure detection that is clinically applicable for use as a seizure screening solution in diagnostic workflows.","PeriodicalId":12462,"journal":{"name":"Frontiers in Neuroinformatics","volume":"121 1","pages":""},"PeriodicalIF":3.5,"publicationDate":"2024-03-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140154529","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Intra-V1 functional networks and classification of observed stimuli V1 内功能网络和观察到的刺激分类
IF 3.5 4区 医学
Frontiers in Neuroinformatics Pub Date : 2024-03-11 DOI: 10.3389/fninf.2024.1080173
Marlis Ontivero-Ortega, Jorge Iglesias-Fuster, Jhoanna Perez-Hidalgo, Daniele Marinazzo, Mitchell Valdes-Sosa, Pedro Valdes-Sosa
{"title":"Intra-V1 functional networks and classification of observed stimuli","authors":"Marlis Ontivero-Ortega, Jorge Iglesias-Fuster, Jhoanna Perez-Hidalgo, Daniele Marinazzo, Mitchell Valdes-Sosa, Pedro Valdes-Sosa","doi":"10.3389/fninf.2024.1080173","DOIUrl":"https://doi.org/10.3389/fninf.2024.1080173","url":null,"abstract":"IntroductionPrevious studies suggest that co-fluctuations in neural activity within V1 (measured with fMRI) carry information about observed stimuli, potentially reflecting various cognitive mechanisms. This study explores the neural sources shaping this information by using different fMRI preprocessing methods. The common response to stimuli shared by all individuals can be emphasized by using inter-subject correlations or de-emphasized by deconvolving the fMRI with hemodynamic response functions (HRFs) before calculating the correlations. The latter approach shifts the balance towards participant-idiosyncratic activity.MethodsHere, we used multivariate pattern analysis of intra-V1 correlation matrices to predict the Level or Shape of observed Navon letters employing the types of correlations described above. We assessed accuracy in inter-subject prediction of specific conjunctions of properties, and attempted intra-subject cross-classification of stimulus properties (i.e., prediction of one feature despite changes in the other). Weight maps from successful classifiers were projected onto the visual field. A control experiment investigated eye-movement patterns during stimuli presentation.ResultsAll inter-subject classifiers accurately predicted the Level and Shape of specific observed stimuli. However, successful intra-subject cross-classification was achieved only for stimulus Level, but not Shape, regardless of preprocessing scheme. Weight maps for successful Level classification differed between inter-subject correlations and deconvolved correlations. The latter revealed asymmetries in visual field link strength that corresponded to known perceptual asymmetries. Post-hoc measurement of eyeball fMRI signals did not find differences in gaze between stimulus conditions, and a control experiment (with derived simulations) also suggested that eye movements do not explain the stimulus-related changes in V1 topology.DiscussionOur findings indicate that both inter-subject common responses and participant-specific activity contribute to the information in intra-V1 co-fluctuations, albeit through distinct sub-networks. Deconvolution, that enhances subject-specific activity, highlighted interhemispheric links for Global stimuli. Further exploration of intra-V1 networks promises insights into the neural basis of attention and perceptual organization.","PeriodicalId":12462,"journal":{"name":"Frontiers in Neuroinformatics","volume":"30 1","pages":""},"PeriodicalIF":3.5,"publicationDate":"2024-03-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140105131","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Exploring EEG-based motor imagery decoding: a dual approach using spatial features and spectro-spatial Deep Learning model IFNet 探索基于脑电图的运动图像解码:使用空间特征和光谱空间深度学习模型 IFNet 的双重方法
IF 3.5 4区 医学
Frontiers in Neuroinformatics Pub Date : 2024-02-29 DOI: 10.3389/fninf.2024.1345425
Javier V. Juan, Rubén Martínez, Eduardo Iáñez, Mario Ortiz, Jesús Tornero, José M. Azorín
{"title":"Exploring EEG-based motor imagery decoding: a dual approach using spatial features and spectro-spatial Deep Learning model IFNet","authors":"Javier V. Juan, Rubén Martínez, Eduardo Iáñez, Mario Ortiz, Jesús Tornero, José M. Azorín","doi":"10.3389/fninf.2024.1345425","DOIUrl":"https://doi.org/10.3389/fninf.2024.1345425","url":null,"abstract":"IntroductionIn recent years, the decoding of motor imagery (MI) from electroencephalography (EEG) signals has become a focus of research for brain-machine interfaces (BMIs) and neurorehabilitation. However, EEG signals present challenges due to their non-stationarity and the substantial presence of noise commonly found in recordings, making it difficult to design highly effective decoding algorithms. These algorithms are vital for controlling devices in neurorehabilitation tasks, as they activate the patient's motor cortex and contribute to their recovery.MethodsThis study proposes a novel approach for decoding MI during pedalling tasks using EEG signals. A widespread approach is based on feature extraction using Common Spatial Patterns (CSP) followed by a linear discriminant analysis (LDA) as a classifier. The first approach covered in this work aims to investigate the efficacy of a task-discriminative feature extraction method based on CSP filter and LDA classifier. Additionally, the second alternative hypothesis explores the potential of a spectro-spatial Convolutional Neural Network (CNN) to further enhance the performance of the first approach. The proposed CNN architecture combines a preprocessing pipeline based on filter banks in the frequency domain with a convolutional neural network for spectro-temporal and spectro-spatial feature extraction.Results and discussionTo evaluate the approaches and their advantages and disadvantages, EEG data has been recorded from several able-bodied users while pedalling in a cycle ergometer in order to train motor imagery decoding models. The results show levels of accuracy up to 80% in some cases. The CNN approach shows greater accuracy despite higher instability.","PeriodicalId":12462,"journal":{"name":"Frontiers in Neuroinformatics","volume":"109 1","pages":""},"PeriodicalIF":3.5,"publicationDate":"2024-02-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140008705","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
A scoping review of mathematical models covering Alzheimer's disease progression 涵盖阿尔茨海默病进展的数学模型范围综述
IF 3.5 4区 医学
Frontiers in Neuroinformatics Pub Date : 2024-02-28 DOI: 10.3389/fninf.2024.1281656
Seyedadel Moravveji, Nicolas Doyon, Javad Mashreghi, Simon Duchesne
{"title":"A scoping review of mathematical models covering Alzheimer's disease progression","authors":"Seyedadel Moravveji, Nicolas Doyon, Javad Mashreghi, Simon Duchesne","doi":"10.3389/fninf.2024.1281656","DOIUrl":"https://doi.org/10.3389/fninf.2024.1281656","url":null,"abstract":"<p>Alzheimer's disease is a complex, multi-factorial, and multi-parametric neurodegenerative etiology. Mathematical models can help understand such a complex problem by providing a way to explore and conceptualize principles, merging biological knowledge with experimental data into a model amenable to simulation and external validation, all without the need for extensive clinical trials. We performed a scoping review of mathematical models describing the onset and evolution of Alzheimer's disease as a result of biophysical factors following the PRISMA standard. Our search strategy applied to the PubMed database yielded 846 entries. After using our exclusion criteria, only 17 studies remained from which we extracted data, which focused on three aspects of mathematical modeling: how authors addressed continuous time (since even when the measurements are punctual, the biological processes underlying Alzheimer's disease evolve continuously), how models were solved, and how the high dimensionality and non-linearity of models were managed. Most articles modeled Alzheimer's disease at the cellular level, operating on a short time scale (e.g., minutes or hours), i.e., the micro view (12/17); the rest considered regional or brain-level processes with longer timescales (e.g., years or decades) (the macro view). Most papers were concerned primarily with amyloid beta (<italic>n</italic> = 8), few described both amyloid beta and tau proteins (<italic>n</italic> = 3), while some considered more than these two factors (<italic>n</italic> = 6). Models used partial differential equations (<italic>n</italic> = 3), ordinary differential equations (<italic>n</italic> = 7), and both partial differential equations and ordinary differential equations (<italic>n</italic> = 3). Some did not specify their mathematical formalism (<italic>n</italic> = 4). Sensitivity analyses were performed in only a small number of papers (4/17). Overall, we found that only two studies could be considered valid in terms of parameters and conclusions, and two more were partially valid. This puts the majority (<italic>n</italic> = 13) as being either invalid or with insufficient information to ascertain their status. This was the main finding of our paper, in that serious shortcomings make their results invalid or non-reproducible. These shortcomings come from insufficient methodological description, poor calibration, or the impossibility of experimentally validating or calibrating the model. Those shortcomings should be addressed by future authors to unlock the usefulness of mathematical models in Alzheimer's disease.</p>","PeriodicalId":12462,"journal":{"name":"Frontiers in Neuroinformatics","volume":"19 1","pages":""},"PeriodicalIF":3.5,"publicationDate":"2024-02-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140124651","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
suMRak: a multi-tool solution for preclinical brain MRI data analysis suMRak:临床前脑磁共振成像数据分析的多工具解决方案
IF 3.5 4区 医学
Frontiers in Neuroinformatics Pub Date : 2024-02-26 DOI: 10.3389/fninf.2024.1358917
Rok Ister, Marko Sternak, Siniša Škokić, Srećko Gajović
{"title":"suMRak: a multi-tool solution for preclinical brain MRI data analysis","authors":"Rok Ister, Marko Sternak, Siniša Škokić, Srećko Gajović","doi":"10.3389/fninf.2024.1358917","DOIUrl":"https://doi.org/10.3389/fninf.2024.1358917","url":null,"abstract":"<sec><title>Introduction</title><p>Magnetic resonance imaging (MRI) is invaluable for understanding brain disorders, but data complexity poses a challenge in experimental research. In this study, we introduce suMRak, a MATLAB application designed for efficient preclinical brain MRI analysis. SuMRak integrates brain segmentation, volumetry, image registration, and parameter map generation into a unified interface, thereby reducing the number of separate tools that researchers may require for straightforward data handling.</p></sec><sec><title>Methods and implementation</title><p>All functionalities of suMRak are implemented using the MATLAB App Designer and the MATLAB-integrated Python engine. A total of six helper applications were developed alongside the main suMRak interface to allow for a cohesive and streamlined workflow. The brain segmentation strategy was validated by comparing suMRak against manual segmentation and ITK-SNAP, a popular open-source application for biomedical image segmentation.</p></sec><sec><title>Results</title><p>When compared with the manual segmentation of coronal mouse brain slices, suMRak achieved a high Sørensen–Dice similarity coefficient (0.98 ± 0.01), approaching manual accuracy. Additionally, suMRak exhibited significant improvement (<italic>p</italic> = 0.03) when compared to ITK-SNAP, particularly for caudally located brain slices. Furthermore, suMRak was capable of effectively analyzing preclinical MRI data obtained in our own studies. Most notably, the results of brain perfusion map registration to T2-weighted images were shown, improving the topographic connection to anatomical areas and enabling further data analysis to better account for the inherent spatial distortions of echoplanar imaging.</p></sec><sec><title>Discussion</title><p>SuMRak offers efficient MRI data processing of preclinical brain images, enabling researchers' consistency and precision. Notably, the accelerated brain segmentation, achieved through K-means clustering and morphological operations, significantly reduces processing time and allows for easier handling of larger datasets.</p></sec>","PeriodicalId":12462,"journal":{"name":"Frontiers in Neuroinformatics","volume":"25 1","pages":""},"PeriodicalIF":3.5,"publicationDate":"2024-02-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140299170","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Accelerating spiking neural network simulations with PymoNNto and PymoNNtorch 利用 PymoNNto 和 PymoNNtorch 加速尖峰神经网络仿真
IF 3.5 4区 医学
Frontiers in Neuroinformatics Pub Date : 2024-02-20 DOI: 10.3389/fninf.2024.1331220
Marius Vieth, Ali Rahimi, Ashena Gorgan Mohammadi, Jochen Triesch, Mohammad Ganjtabesh
{"title":"Accelerating spiking neural network simulations with PymoNNto and PymoNNtorch","authors":"Marius Vieth, Ali Rahimi, Ashena Gorgan Mohammadi, Jochen Triesch, Mohammad Ganjtabesh","doi":"10.3389/fninf.2024.1331220","DOIUrl":"https://doi.org/10.3389/fninf.2024.1331220","url":null,"abstract":"Spiking neural network simulations are a central tool in Computational Neuroscience, Artificial Intelligence, and Neuromorphic Engineering research. A broad range of simulators and software frameworks for such simulations exist with different target application areas. Among these, PymoNNto is a recent Python-based toolbox for spiking neural network simulations that emphasizes the embedding of custom code in a modular and flexible way. While PymoNNto already supports GPU implementations, its backend relies on NumPy operations. Here we introduce PymoNNtorch, which is natively implemented with PyTorch while retaining PymoNNto's modular design. Furthermore, we demonstrate how changes to the implementations of common network operations in combination with PymoNNtorch's native GPU support can offer speed-up over conventional simulators like NEST, ANNarchy, and Brian 2 in certain situations. Overall, we show how PymoNNto's modular and flexible design in combination with PymoNNtorch's GPU acceleration and optimized indexing operations facilitate research and development of spiking neural networks in the Python programming language.","PeriodicalId":12462,"journal":{"name":"Frontiers in Neuroinformatics","volume":"45 1","pages":""},"PeriodicalIF":3.5,"publicationDate":"2024-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139918181","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Empirical comparison of deep learning models for fNIRS pain decoding 用于 fNIRS 疼痛解码的深度学习模型的经验比较
IF 3.5 4区 医学
Frontiers in Neuroinformatics Pub Date : 2024-02-14 DOI: 10.3389/fninf.2024.1320189
Raul Fernandez Rojas, Calvin Joseph, Ghazal Bargshady, Keng-Liang Ou
{"title":"Empirical comparison of deep learning models for fNIRS pain decoding","authors":"Raul Fernandez Rojas, Calvin Joseph, Ghazal Bargshady, Keng-Liang Ou","doi":"10.3389/fninf.2024.1320189","DOIUrl":"https://doi.org/10.3389/fninf.2024.1320189","url":null,"abstract":"IntroductionPain assessment is extremely important in patients unable to communicate and it is often done by clinical judgement. However, assessing pain using observable indicators can be challenging for clinicians due to the subjective perceptions, individual differences in pain expression, and potential confounding factors. Therefore, the need for an objective pain assessment method that can assist medical practitioners. Functional near-infrared spectroscopy (fNIRS) has shown promising results to assess the neural function in response of nociception and pain. Previous studies have explored the use of machine learning with hand-crafted features in the assessment of pain.MethodsIn this study, we aim to expand previous studies by exploring the use of deep learning models Convolutional Neural Network (CNN), Long Short-Term Memory (LSTM), and (CNN-LSTM) to automatically extract features from fNIRS data and by comparing these with classical machine learning models using hand-crafted features.ResultsThe results showed that the deep learning models exhibited favourable results in the identification of different types of pain in our experiment using only fNIRS input data. The combination of CNN and LSTM in a hybrid model (CNN-LSTM) exhibited the highest performance (accuracy = 91.2%) in our problem setting. Statistical analysis using one-way ANOVA with Tukey's (<jats:italic>post-hoc</jats:italic>) test performed on accuracies showed that the deep learning models significantly improved accuracy performance as compared to the baseline models.DiscussionOverall, deep learning models showed their potential to learn features automatically without relying on manually-extracted features and the CNN-LSTM model could be used as a possible method of assessment of pain in non-verbal patients. Future research is needed to evaluate the generalisation of this method of pain assessment on independent populations and in real-life scenarios.","PeriodicalId":12462,"journal":{"name":"Frontiers in Neuroinformatics","volume":"13 1","pages":""},"PeriodicalIF":3.5,"publicationDate":"2024-02-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139768382","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Multiscale co-simulation design pattern for neuroscience applications 神经科学应用的多尺度协同仿真设计模式
IF 3.5 4区 医学
Frontiers in Neuroinformatics Pub Date : 2024-02-12 DOI: 10.3389/fninf.2024.1156683
Lionel Kusch, Sandra Diaz-Pier, Wouter Klijn, Kim Sontheimer, Christophe Bernard, Abigail Morrison, Viktor Jirsa
{"title":"Multiscale co-simulation design pattern for neuroscience applications","authors":"Lionel Kusch, Sandra Diaz-Pier, Wouter Klijn, Kim Sontheimer, Christophe Bernard, Abigail Morrison, Viktor Jirsa","doi":"10.3389/fninf.2024.1156683","DOIUrl":"https://doi.org/10.3389/fninf.2024.1156683","url":null,"abstract":"Integration of information across heterogeneous sources creates added scientific value. Interoperability of data, tools and models is, however, difficult to accomplish across spatial and temporal scales. Here we introduce the toolbox Parallel Co-Simulation, which enables the interoperation of simulators operating at different scales. We provide a software science co-design pattern and illustrate its functioning along a neuroscience example, in which individual regions of interest are simulated on the cellular level allowing us to study detailed mechanisms, while the remaining network is efficiently simulated on the population level. A workflow is illustrated for the use case of The Virtual Brain and NEST, in which the CA1 region of the cellular-level hippocampus of the mouse is embedded into a full brain network involving micro and macro electrode recordings. This new tool allows integrating knowledge across scales in the same simulation framework and validating them against multiscale experiments, thereby largely widening the explanatory power of computational models.","PeriodicalId":12462,"journal":{"name":"Frontiers in Neuroinformatics","volume":"13 1","pages":""},"PeriodicalIF":3.5,"publicationDate":"2024-02-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139768383","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
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