BrainStorm: Highly Extensible Software for Advanced Electrophysiology and MEG/EEG Imaging

BrainStorm：用于高级电生理学和 MEG/EEG 成像的高度可扩展软件

• 批准号: 10375893
• 负责人: Richard M Leahy
• 金额: $ 65.01万
• 依托单位: UNIVERSITY OF SOUTHERN CALIFORNIA
• 依托单位国家: 美国
• 财政年份: 2018
• 资助国家: 美国
• 起止时间: 2018-06-15 至 2026-03-31
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10375893
• 关键词: Address; Alzheimer' s Disease; Anatomy; Animal Model; Animals; Atlases; Behavior; Behavioral; Brain; Brain imaging; Clinical; Code; Cognition; Collaborations; Communities; Complex; Computer software; Data; Data Files; Development; Diffusion; Documentation; Eastern Cooperative Oncology Group; Educational workshop; Electrodes; Electroencephalography; Electrophysiology (science); Environment; Epilepsy; Equilibrium; Event; Faculty; Head; High Frequency Oscillation; Human; Image; Imaging Device; In Vitro; Individual; Infant; Java; Knowledge; Label; Lead; Link; Linux; Magnetic Resonance Imaging; Magnetoencephalography; Maintenance; Measures; Mental disorders; Methodology; Microelectrodes; Modality; Modeling; Neurologic; Neurons; Neurosciences; Neurosciences Research; Obsessive-Compulsive Disorder; Occupations; Online Systems; Persons; Philosophy; Play; Postdoctoral Fellow; Preparation; Publishing; Pythons; Readability; Recording of previous events; Reporting; Reproducibility; Research; Research Design; Research Personnel; Role; Running; Schizophrenia; Sensory; Sleep; Sorting - Cell Movement; Source; Staging; Stimulus; Students; Techniques; Testing; Training; Validation; Visualization; Visualization software; X-Ray Computed Tomography; autism spectrum disorder; base; behavioral response; cognitive neuroscience; computerized data processing; computerized tools; data format; data repository; data resource; data structure; database structure; distributed data; imaging Segmentation; improved; in vivo; innovation; interest; interoperability; multimodality; neurophysiology; novel; open source; power analysis; programs; relating to nervous system; response; statistics; tool

PROJECT SUMMARY / ABSTRACT Brainstorm is a Matlab/Java multi-platform (Linux, MacOS, Windows) software environment for analysis and visualization of electrophysiological (e-phys) data. While originally focused on noninvasive EEG and MEG, Brainstorm now also includes tools for analysis and advanced visualization of a broader range of data modalities: intracranial EEG including ECOG, SEEG macroelectrode recordings, MUA and LFP microelectrode data in humans and in-vitro/in-vivo preparations in animal models, and noninvasive NIRS data. The software is widely used and plays an increasingly important role in clinical and cognitive neuroscience research as reflected in the following statistics over the past decade: 1,700 published articles reporting analyses performed with Brainstorm, 30,000 user accounts, 34,000 posts on the online user forum, and 2,000 students, postdocs and faculty around the globe have attended in-person or online Brainstorm training events. Over the past four years we have built on the extensive capabilities of Brainstorm by defining and implementing a BIDS-compatible database structure and adding tools for cloud/advanced computing over distributed data resources. We have added improved interfaces with other EEG/MEG software, leading spike-sorting e-phys software, and hardware (including the ability to import from multiple commercial file data formats). We have also added interoperability with MRI- analysis software and deployed tools for FEM-based head modeling. Under this renewal we will address the following: Aim 1: Enabling Tools for Naturalistic and Single-Trial Neurophysiology Studies: There is increasing scientific interest in eliciting, recording, and analyzing neural responses to non-repetitive and naturalistic stimuli. Data of this type present particular challenges in terms of documenting rigorously varied, uncontrolled sensory events and behavioral responses with machine and human readable annotations, and relating such complex sensory presentations and behavior to measured brain activity. We will therefore develop a suite of tools for preparing and analyzing multimodal e-phys data in the context of naturalistic neuroscience. Aim2: Tools for Invasive Recordings: We will build on developments in the current project period to provide tools for preprocessing and analysis of invasive recordings and FEM-based modeling of intracranial current fields including labelling, localization and co-registration of complex iEEG electrode montages from X-ray CT to MRI, automated identification and tagging of interictal features in iEEG, and characterization, localization and validation of neuronal sources from iEEG. Aim 3: Software Enhancement, Integration, Maintenance, Training, and Documentation: We will pursue a three-pronged development track: (i) a hub-based framework in which third-party tools can be linked, run and with results visualized entirely from Brainstorm as a hub; (ii) build on our existing provenance tools so that users can save analysis histories to allow full reproducibility; and (iii) provide links and interoperability with statistical packages to promote rigor. We will continue to develop Brainstorm with multiplatform compatibility, web-based documentation, user forums, and hands-on training.

项目总结/摘要 Brainstorm是一个Matlab/Java多平台（Linux，MacOS，Windows）软件环境，用于分析和 电生理数据可视化（e-phys）。虽然最初专注于非侵入性EEG和MEG， Brainstorm现在还包括用于分析和高级可视化更广泛的数据模式的工具： 颅内EEG包括ECOG、SEEG宏电极记录、MUA和LFP微电极数据， 人和动物模型中的体外/体内制剂，以及非侵入性NIRS数据。该软件广泛 在临床和认知神经科学研究中使用并发挥着越来越重要的作用， 以下是过去十年的统计数据：1，700篇发表的文章报告了使用Brainstorm进行的分析， 30，000个用户帐户，在线用户论坛上的34，000个帖子，以及2，000名学生，博士后和教职员工 地球仪参加了面对面或在线的头脑风暴培训活动。在过去的四年里，我们建立了 通过定义和实现与BID兼容的数据库结构， 以及为分布式数据资源上的云/高级计算添加工具。我们增加了改进的 与其他EEG/MEG软件、领先的尖峰分选e-phys软件和硬件（包括 从多种商业文件数据格式导入的能力）。我们还增加了与MRI的互操作性- 分析软件和基于FEM的头部建模部署工具。在这次更新中，我们将解决 目标1：为自然主义和单一试验神经生理学研究提供工具： 越来越多的科学兴趣在引发，记录和分析神经反应的非重复性和 自然的刺激。这类数据在记录各种各样的数据方面提出了特别的挑战， 不受控制的感官事件和行为反应，带有机器和人类可读的注释，以及 将这种复杂的感觉呈现和行为与测量的大脑活动相关联。因此，我们将开发 一套工具，用于在自然神经科学的背景下准备和分析多模态e-phys数据。 目标2：侵入性记录工具：我们将在当前项目期间的开发基础上， 用于预处理和分析侵入性记录和基于FEM的颅内电流场建模的工具 包括从X射线CT到MRI的复杂iEEG电极导联的标记、定位和共配准， 自动识别和标记iEEG中的发作间期特征，以及表征、定位和 验证来自iEEG的神经元源。目标3：软件增强、集成、维护， 培训和文档：我们将采取三管齐下的发展轨道：（i）基于中心的框架 第三方工具可以链接、运行，结果完全通过Brainstorm可视化;（ii）构建 我们现有的来源工具，以便用户可以保存分析历史，以允许完全再现;以及（iii） 提供与统计软件包的链接和互操作性，以提高严谨性。我们将继续发展 通过多平台兼容性、基于Web的文档、用户论坛和实践培训进行头脑风暴。