Journal of Neuroscience Methods最新文献

{"title":"Multimodal sleep signal tensor decomposition and hidden Markov Modeling for temazepam-induced anomalies across age groups","authors":"Parikshat Sirpal ,&nbsp;William A. Sikora ,&nbsp;Hazem H. Refai","doi":"10.1016/j.jneumeth.2025.110375","DOIUrl":"10.1016/j.jneumeth.2025.110375","url":null,"abstract":"<div><h3>Background</h3><div>Recent advances in multimodal signal analysis enable the identification of subtle drug-induced anomalies in sleep that traditional methods often miss.</div></div><div><h3>New method</h3><div>We develop and introduce the Dynamic Representation of Multimodal Activity and Markov States (DREAMS) framework, which embeds explainable artificial intelligence (XAI) techniques to model hidden state transitions during sleep using tensorized EEG, EMG, and EOG signals from 22 subjects across three age groups (18–29, 30–49, and 50–66 years). By combining Tucker decomposition with probabilistic Hidden Markov Modeling, we quantified age-specific, temazepam-induced hidden states and significant differences in transition probabilities.</div></div><div><h3>Results</h3><div>Jensen-Shannon Divergence (JSD) was employed to assess variability in hidden state transitions, with older subjects (50–66 years) under temazepam displaying heightened transition variability and network instability as indicated by a 48.57 % increase in JSD (from 0.35 to 0.52) and reductions in network density by 12.5 % (from 0.48 to 0.42) and modularity by 21.88 % (from 0.32 to 0.25). These changes reflect temazepam’s disruptive impact on sleep architecture in older adults, aligning with known age-related declines in sleep stability and pharmacological sensitivity. In contrast, younger subjects exhibited lower divergence and retained relatively stable, cyclical transition patterns. Anomaly scores further quantified deviations in state transitions, with older subjects showing increased transition uncertainty and marked deviations in REM-like to NREM state transitions.</div></div><div><h3>Comparison with existing methods</h3><div>This XAI-driven framework provides transparent, age-specific insights into temazepam’s impact on sleep dynamics, going beyond traditional methods by identifying subtle, pharmacologically induced changes in sleep stage transitions that would otherwise be missed.</div></div><div><h3>Conclusions</h3><div>DREAMS supports the development of personalized interventions based on sleep transition variability across age groups, offering a powerful tool to understand temazepam’s age-dependent effects on sleep architecture.</div></div>","PeriodicalId":16415,"journal":{"name":"Journal of Neuroscience Methods","volume":"416 ","pages":"Article 110375"},"PeriodicalIF":2.7,"publicationDate":"2025-01-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143059254","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Two-brain microstates: A novel hyperscanning-EEG method for quantifying task-driven inter-brain asymmetry","authors":"Qianliang Li ,&nbsp;Marius Zimmermann ,&nbsp;Ivana Konvalinka","doi":"10.1016/j.jneumeth.2024.110355","DOIUrl":"10.1016/j.jneumeth.2024.110355","url":null,"abstract":"<div><h3>Background:</h3><div>The neural mechanisms underlying real-time social interaction remain poorly understood. While hyperscanning has emerged as a popular method to better understand inter-brain mechanisms, inter-brain methods remain underdeveloped, and primarily focused on inter-brain synchronization (IBS).</div></div><div><h3>New method:</h3><div>We developed a novel approach employing two-brain EEG microstates, to investigate neural mechanisms during symmetric and asymmetric interactive tasks. Microstates are quasi-stable configurations of brain activity that have been proposed to represent basic building blocks for mental processing. Expanding the microstate methodology to dyads of interacting participants enables us to investigate quasi-stable moments of inter-brain synchronous and asymmetric activity.</div></div><div><h3>Results:</h3><div>Conventional microstates fitted to individuals were not related to the different interactive conditions. However, two-brain microstates were modulated in the observer–actor condition, compared to all other conditions where participants had more symmetric task demands, and the same trend was observed for the follower–leader condition. This indicates differences in resting state default-mode network activity during interactions with asymmetric tasks.</div></div><div><h3>Comparison with existing methods:</h3><div>Hyperscanning studies have primarily estimated IBS based on functional connectivity measures. However, localized connections are often hard to interpret on a larger scale when multiple connections across brains are found to be important. Two-brain microstates offer an alternative approach to evaluate neural activity from a large-scale global network perspective, by quantifying task-driven asymmetric neural states between interacting individuals.</div></div><div><h3>Conclusions:</h3><div>We present a novel method using two-brain microstates, including open-source code, which expands the current hyperscanning-EEG methodology to measure and potentially identify both synchronous and asymmetric inter-brain states during real-time social interaction.</div></div>","PeriodicalId":16415,"journal":{"name":"Journal of Neuroscience Methods","volume":"416 ","pages":"Article 110355"},"PeriodicalIF":2.7,"publicationDate":"2025-01-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143039403","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Isolation, culture, and characterization of primary endothelial cells and pericytes from mouse sciatic nerve","authors":"Yan Huang ,&nbsp;Hai-Rong Jin ,&nbsp;Fang-Yuan Liu ,&nbsp;Fitri Rahma Fridayana ,&nbsp;Minh Nhat Vo ,&nbsp;Ji-Kan Ryu ,&nbsp;Guo Nan Yin","doi":"10.1016/j.jneumeth.2025.110366","DOIUrl":"10.1016/j.jneumeth.2025.110366","url":null,"abstract":"<div><h3>Background</h3><div>The recovery of injured peripheral nerves relies on angiogenesis, where newly formed blood vessels act as pathways guiding Schwann cells across the wound to support axon regeneration. While some research has examined this process, the specific mechanisms of angiogenesis in peripheral nerve healing remain unclear. <em>In vitro</em> models are vital tools to investigate these mechanisms; however, no current <em>in vitro</em> culture methods exist for isolating vascular cells, such as endothelial cells (ECs) and pericytes, specifically from sciatic nerves.</div></div><div><h3>New method</h3><div>We developed a straightforward and reliable technique for isolating ECs and pericytes from injured sciatic nerves, optimized for use in <em>in vitro</em> studies. Cell types were characterized using specific markers and phenotypic assessments, with flow cytometry confirming cell identity and determining cell purity.</div></div><div><h3>Results</h3><div>Our method successfully isolated high-purity ECs and pericytes from injured sciatic nerves. Immunofluorescence analysis showed that primary cultured ECs exhibited strong positive staining for CD31, while pericytes stained strongly for NG2 and PDGFRβ. Flow cytometric analysis confirmed that ECs achieved a purity of 90.22 %, and pericytes reached a purity of 92.01 %. Both cell types were capable of forming organized capillary-like structures, and in co-culture systems, pericytes effectively wrapped around ECs.</div></div><div><h3>Comparison with existing methods</h3><div>Current isolation methods for ECs and pericytes from sciatic nerves are limited. Although techniques exist for isolating these cells from other tissues, they often rely on enzymatic digestion, which can damage cell surface proteins and reduce cell viability. Our method allows for the efficient isolation of intact ECs and pericytes from sciatic nerve tissue without such drawbacks, providing a robust platform for <em>in vitro</em> studies.</div></div><div><h3>Conclusions</h3><div>This newly developed method offers an effective approach to isolate ECs and pericytes from the sciatic nerve, contributing a valuable tool for investigating the function and pathology of angiogenesis in the context of sciatic nerve injury recovery.</div></div>","PeriodicalId":16415,"journal":{"name":"Journal of Neuroscience Methods","volume":"416 ","pages":"Article 110366"},"PeriodicalIF":2.7,"publicationDate":"2025-01-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143029083","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A method for HDAC activity screening in postmortem human brain. A proof-of-concept study with antipsychotics","authors":"Oihane Martínez-Peula ,&nbsp;Alfredo Ramos-Miguel ,&nbsp;Carolina Muguruza ,&nbsp;Luis F. Callado ,&nbsp;J. Javier Meana ,&nbsp;Guadalupe Rivero","doi":"10.1016/j.jneumeth.2025.110365","DOIUrl":"10.1016/j.jneumeth.2025.110365","url":null,"abstract":"<div><h3>Background</h3><div>Histone deacetylase (HDAC) density and activity are altered in different brain disorders. Antipsychotic drugs (APs) might modulate HDAC activity in brains of schizophrenia subjects.</div></div><div><h3>New method</h3><div>HDAC activity assay amenable for enzyme kinetics and HDAC inhibitor (HDACi) screening studies in postmortem human brain samples.</div></div><div><h3>Results</h3><div>The optimization and characterization work involved several steps. The nucleosolic subcellular fraction and total protein amount needed for an optimal HDAC activity on Boc-Lys(Ac)-AMC substrate were characterized. Signal-to-noise ratio (1.8) and Z-score values (0.82) were indicators of the assay quality. Inhibition studies with non-selective (belinostat, vorinostat, valproic acid) and selective (apicidin, MS275, romidepsin, tacedinaline and EX527) HDACis showed that the optimized assay detected class I HDAC activity. The obtained IC50 values were similar to those previously reported, proving the assay reliability.</div><div>We used the optimized assay to study the effect of APs on HDAC activity. Inhibition studies with APs in postmortem human brain, together with enzyme kinetic studies in brains of rats chronically treated with APs observed no modulation of class I HDAC activity.</div></div><div><h3>Comparison with existing methods</h3><div>This study describes the optimization of a reliable and cost efficient HDAC activity assay for its use in postmortem human brain samples. The assay does not depend on antibody specificity and it is valid for enzyme kinetic studies and for the screening of new potential class I HDACis.</div></div><div><h3>Conclusions</h3><div>We optimized and characterized an assay to measure HDAC activity in postmortem human brain samples. We did not observe any modulatory effect of APs on HDAC activity.</div></div>","PeriodicalId":16415,"journal":{"name":"Journal of Neuroscience Methods","volume":"416 ","pages":"Article 110365"},"PeriodicalIF":2.7,"publicationDate":"2025-01-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143006315","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}

{"title":"Guidelines for animal models of endurance and resistance exercise","authors":"Zeinab Rezaee","doi":"10.1016/j.jneumeth.2025.110362","DOIUrl":"10.1016/j.jneumeth.2025.110362","url":null,"abstract":"<div><h3>Background</h3><div>This mini-review details the guideline for implementing the most common exercise patterns in small laboratory rodents (mice/rats) and the advantages and disadvantages of each, in ways that are comparable to humans. Also, criteria for targeted selection and control of workload and intensity of activity are proposed in different exercise programs.</div><div>New method:</div><div>As an available and low-cost intervention in physiological, biochemical and cellular-molecular assessments, different exercise programs can be effective in the prevention/treatment of many skeletal-structural, behavioral and neurodegenerative disorders. Exercise tolerance/intolerance is an indicator of the complex function of the physiological, metabolic, neuromuscular, cardiovascular and respiratory systems, and in this sense, animal models of exercise are of interest to researchers by creating a controllable and precise environment.</div></div><div><h3>Results</h3><div>Considering the different species of laboratory animals and various exercise paradigms, selecting the type, intensity and duration of the program in an optimal manner is a difficult task, especially in conditions such as old age or illness, and if necessary, existing research tools and protocols should be reviewed. In fact, one of the most attractive applications of exercise models is the discovery of preventive/therapeutic strategies for many disorders, which necessitates more knowledge about exercise protocols.</div></div><div><h3>Conclusions</h3><div>Animal models of endurance/resistance exercise on land/water make it possible to evaluate physiological/pathological conditions. However, to obtain optimal and reproducible results in human samples, the effectiveness of anesthetic drugs, surgical procedures, and the stress caused by exercise tools and equipment must be carefully controlled.</div></div>","PeriodicalId":16415,"journal":{"name":"Journal of Neuroscience Methods","volume":"416 ","pages":"Article 110362"},"PeriodicalIF":2.7,"publicationDate":"2025-01-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143006636","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}

{"title":"PIDGN: An explainable multimodal deep learning framework for early prediction of Parkinson's disease","authors":"Wenjia Li ,&nbsp;Quanrui Rao ,&nbsp;Shuying Dong ,&nbsp;Mengyuan Zhu ,&nbsp;Zhen Yang ,&nbsp;Xianggeng Huang ,&nbsp;Guangchen Liu","doi":"10.1016/j.jneumeth.2025.110363","DOIUrl":"10.1016/j.jneumeth.2025.110363","url":null,"abstract":"<div><h3>Background</h3><div>Parkinson's disease (PD), the second most common neurodegenerative disease in the world, is usually not diagnosed until the later stages of the disease, when patients might have already missed the best treatment period. Therefore, more effective prediction methods based on artificial intelligence (AI) are needed to assist physicians in timely diagnosis.</div></div><div><h3>New methods</h3><div>An explainable deep learning-based early Parkinson's disease diagnostic model, Parkinson's Integrative Diagnostic Gated Network (PIDGN), was designed by fusing Single Nucleotide Polymorphism (SNP) and brain sMRI data. Firstly, unimodal internal information was extracted using EmsembleTree dimensionality reduction method, Transformer encoder and 3D ResNet. Secondly, gated attention fusion technique was utilized to explore the inter-modal interactions. Finally, the classification results were output through the fully connected layer. SHapley additive interpretation (SHAP) values and Gradient-weighted Class Activation Mapping (Grad-CAM) techniques were used to help explain the importance of SNPs and brain regions for PD.</div></div><div><h3>Results</h3><div>The results showed that the PIDGN model achieved the best results with the accuracy of 0.858 and AUROC of 0.897. Top 20 SNPs and the brain regions near the midbrain potentially related to PD were identified using two explainable techniques via SHAP values and Grad-CAM respectively.</div></div><div><h3>Comparison with existing methods and conclusion</h3><div>The PIDGN model trained by fusing genetic and imaging data outperforms 13 other commonly used unimodal or bimodal models. Explainable PIDGN model helps deepen understanding of several SNPs and sMRI key factors that may affect PD. This study provides a potentially effective solution for automated early diagnosis of PD using AI.</div></div>","PeriodicalId":16415,"journal":{"name":"Journal of Neuroscience Methods","volume":"415 ","pages":"Article 110363"},"PeriodicalIF":2.7,"publicationDate":"2025-01-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143006822","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}

{"title":"A wireless optogenetic setup in freely moving mice for evaluation of cortical spreading depolarization in a chronic disease model","authors":"Annika Köhne ,&nbsp;Simeon O.A. Helgers ,&nbsp;Bettina Kewitz ,&nbsp;Rieke M. Haupt ,&nbsp;Viktoria Oppermann ,&nbsp;Franziska Meinert ,&nbsp;Renan Sánchez-Porras ,&nbsp;Maryam Said ,&nbsp;Johannes Woitzik ,&nbsp;Patrick Dömer","doi":"10.1016/j.jneumeth.2025.110364","DOIUrl":"10.1016/j.jneumeth.2025.110364","url":null,"abstract":"<div><h3>Background</h3><div>Spreading depolarization (SD) is an electrophysiological phenomenon of massive neuronal depolarization that occurs in a multitude of brain injuries. Clinical studies and experimental data have linked the occurrence of SDs with secondary brain damage. However, there is a translational gap because of methodological limitations between clinical and experimental approaches focusing on short-term effects. Moreover, usage of highly invasive SD triggers has put into question to what extent SDs themselves or the induction method had caused emergence of tissue damage.</div></div><div><h3>New method</h3><div>To overcome this gap, we here show the successful realization of an experimental approach for long-term SD induction in a wireless setup of minimal invasive optogenetic stimulation in freely behaving mice.</div></div><div><h3>Results</h3><div>The proposed method allows for reliable SD induction over the course of three weeks. SD characteristics induced with the wireless setup were comparable to SDs elicited by KCl or cable-bound optogenetic systems. Immunohistological analysis of c-Fos expression revealed neuronal depolarization across the stimulated hemisphere, whereas TUNEL staining revealed no stimulation related apoptosis.</div></div><div><h3>Comparison with existing methods</h3><div>Optogenetic SD induction so far relied on cable- or fiber-bound systems which restrict experimental possibilities. The proposed model relies on wireless stimulation that allows SD induction in the home cage. In contrast to existing systems, the wireless setup also allows cage enrichment and group housing, therefore allowing behavioral analyses.</div></div><div><h3>Conclusion</h3><div>This experimental setup has excellent potential to investigate the question of possible long-term SD effects in mouse models of different acute pathologies like traumatic brain injury or migraine.</div></div>","PeriodicalId":16415,"journal":{"name":"Journal of Neuroscience Methods","volume":"415 ","pages":"Article 110364"},"PeriodicalIF":2.7,"publicationDate":"2025-01-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143006635","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Establishing In-vivo brain microdialysis for comparing concentrations of a variety of cortical neurotransmitters in the awake rhesus macaque between different cognitive states","authors":"Stella Mayer ,&nbsp;Pankhuri Saxena ,&nbsp;Max Arwed Crayen ,&nbsp;Stefan Treue","doi":"10.1016/j.jneumeth.2025.110361","DOIUrl":"10.1016/j.jneumeth.2025.110361","url":null,"abstract":"<div><h3>Background</h3><div>Neuronal activity is modulated by behavior and cognitive processes. The combination of several neurotransmitter systems, acting directly or indirectly on specific populations of neurons, underlie such modulations. Most studies with non-human primates (NHPs) fail to capture this complexity, partly due to the lack of adequate methods for reliably and simultaneously measuring a broad spectrum of neurotransmitters while the animal engages in behavioral tasks.</div></div><div><h3>New Method</h3><div>To address this gap, we introduce a novel implementation of brain microdialysis (MD), employing semi-chronically implanted guides and probes in awake, behaving NHPs facilitated by removable insets within a standard recording chamber over extrastriate visual cortex (here, the visual middle temporal area (MT)). This approach allows flexible access to diverse brain regions, including areas deep within the sulcus.</div></div><div><h3>Results</h3><div>Reliable concentration measurements of GABA, glutamate, norepinephrine, epinephrine, dopamine, serotonin, and choline were achieved from small sample volumes (&lt;20 µl) using ultra-performance liquid chromatography with electrospray ionization-mass spectrometry (UPLC-ESI-MS). Comparing two behavioral states – ‘active’ and ‘inactive’, we observe subtle concentration variations between the two behavioral states and a greater variability of concentrations in the active state. Additionally, we find positively and negatively correlated concentration changes for neurotransmitter pairs between the behavioral states.</div></div><div><h3>Conclusions</h3><div>Therefore, this MD setup allows insights into the neurochemical dynamics in awake primates, facilitating comprehensive investigations into the roles and the complex interplay of neurotransmitters in cognitive and behavioral functions.</div></div>","PeriodicalId":16415,"journal":{"name":"Journal of Neuroscience Methods","volume":"415 ","pages":"Article 110361"},"PeriodicalIF":2.7,"publicationDate":"2025-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142971275","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"An EEG-based emotion recognition method by fusing multi-frequency-spatial features under multi-frequency bands","authors":"Qiuyu Chen,&nbsp;Xiaoqian Mao,&nbsp;Yuebin Song,&nbsp;Kefa Wang","doi":"10.1016/j.jneumeth.2025.110360","DOIUrl":"10.1016/j.jneumeth.2025.110360","url":null,"abstract":"<div><h3>Background</h3><div>Recognition of emotion changes is of great significance to a person’s physical and mental health. At present, EEG-based emotion recognition methods are mainly focused on time or frequency domains, but rarely on spatial information. Therefore, the goal of this study is to improve the performance of emotion recognition by integrating frequency and spatial domain information under multi-frequency bands.</div></div><div><h3>New methods</h3><div>Firstly, EEG signals of four frequency bands are extracted, and then three frequency-spatial features of differential entropy (DE) symmetric difference (SD) and symmetric quotient (SQ) are separately calculated. Secondly, according to the distribution of EEG electrodes, a series of brain maps are constructed by three frequency-spatial features for each frequency band. Thirdly, a Multi-Parallel-Input Convolutional Neural Network (MPICNN) uses the constructed brain maps to train and obtain the emotion recognition model. Finally, the subject-dependent experiments are conducted on DEAP and SEED-IV datasets.</div></div><div><h3>Results</h3><div>The experimental results of DEAP dataset show that the average accuracy of four-class emotion recognition, namely, high-valence high-arousal, high-valence low-arousal, low-valence high-arousal and low-valence low-arousal, reaches 98.71 %. The results of SEED-IV dataset show the average accuracy of four-class emotion recognition, namely, happy, sad, neutral and fear reaches 92.55 %.</div></div><div><h3>Comparison with existing methods</h3><div>This method has a best classification performance compared with the state-of-the-art methods on both four-class emotion recognition datasets.</div></div><div><h3>Conclusions</h3><div>This EEG-based emotion recognition method fused multi-frequency-spatial features under multi-frequency bands, and effectively improved the recognition performance compared with the existing methods.</div></div>","PeriodicalId":16415,"journal":{"name":"Journal of Neuroscience Methods","volume":"415 ","pages":"Article 110360"},"PeriodicalIF":2.7,"publicationDate":"2025-01-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142950262","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}

{"title":"Convolutional Neural Networks for the segmentation of hippocampal structures in postmortem MRI scans","authors":"Anoop B.N. ,&nbsp;Karl Li ,&nbsp;Nicolas Honnorat ,&nbsp;Tanweer Rashid ,&nbsp;Di Wang ,&nbsp;Jinqi Li ,&nbsp;Elyas Fadaee ,&nbsp;Sokratis Charisis ,&nbsp;Jamie M. Walker ,&nbsp;Timothy E. Richardson ,&nbsp;David A. Wolk ,&nbsp;Peter T. Fox ,&nbsp;José E. Cavazos ,&nbsp;Sudha Seshadri ,&nbsp;Laura E.M. Wisse ,&nbsp;Mohamad Habes","doi":"10.1016/j.jneumeth.2024.110359","DOIUrl":"10.1016/j.jneumeth.2024.110359","url":null,"abstract":"<div><h3>Background:</h3><div>The hippocampus plays a crucial role in memory and is one of the first structures affected by Alzheimer’s disease. Postmortem MRI offers a way to quantify the alterations by measuring the atrophy of the inner structures of the hippocampus. Unfortunately, the manual segmentation of hippocampal subregions required to carry out these measures is very time-consuming.</div></div><div><h3>New Method:</h3><div>In this study, we explore the use of fully automated methods relying on state-of-the-art Deep Learning approaches to produce these annotations. More specifically, we propose a new segmentation framework made of a set of encoder–decoder blocks embedding self-attention mechanisms and atrous spatial pyramidal pooling to produce better maps of the hippocampus and identify four hippocampal regions: the dentate gyrus, the hippocampal head, the hippocampal body, and the hippocampal tail.</div></div><div><h3>Results:</h3><div>Trained using slices extracted from 15 postmortem T1-weighted, T2-weighted, and susceptibility-weighted MRI scans, our new approach produces hippocampus parcellations that are better aligned with the manually delineated parcellations provided by neuroradiologists.</div></div><div><h3>Comparison with Existing Methods:</h3><div>Four standard deep learning segmentation architectures: UNet, Double UNet, Attention UNet, and Multi-resolution UNet have been utilized for the qualitative and quantitative comparison of the proposed hippocampal region segmentation model.</div></div><div><h3>Conclusions:</h3><div>Postmortem MRI serves as a highly valuable neuroimaging technique for examining the effects of neurodegenerative diseases on the intricate structures within the hippocampus. This study opens the way to large sample-size postmortem studies of the hippocampal substructures.</div></div>","PeriodicalId":16415,"journal":{"name":"Journal of Neuroscience Methods","volume":"415 ","pages":"Article 110359"},"PeriodicalIF":2.7,"publicationDate":"2025-01-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142927256","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}