Expanding access to open-source data acquisition software for next-generation silicon probes

扩大对下一代硅探针的开源数据采集软件的访问

• 批准号: 9910473
• 负责人: Joshua H Siegle
• 金额: $ 47.36万
• 依托单位: ALLEN INSTITUTE
• 依托单位国家: 美国
• 财政年份: 2019
• 资助国家: 美国
• 起止时间: 2019-04-15 至 2024-03-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/9910473
• 关键词: Action Potentials; Adoption; Architecture; Area; Brain; Code; Collaborations; Communities; Computer software; Data; Development; Devices; Documentation; Educational workshop; Electrophysiology (science); Ensure; Feedback; Foundations; Funding; Funding Agency; Future; Hair; Head; Human Resources; Institutes; Interview; Laboratories; Learning; Length; Linux; Measures; Mental Health; Mental disorders; Methods; Neurons; Neurosciences; Operating System; Plant Roots; Process; Research; Research Personnel; Resources; Rodent; Scientist; Services; Signal Transduction; Silicon; Site; Source Code; Standardization; Stream; Structure; Surveys; System; Technology; Testing; Time; Trust; Update; Visualization; base; brain cell; cost; data acquisition; data quality; data standards; density; design; experience; experimental study; extracellular; flexibility; improved; millisecond; nanoelectronics; next generation; open data; open source; relating to nervous system; repository; social media; software development; symposium; tool; voltage; volunteer; web site

We plan to provide software support services for Neuropixels probes, a groundbreaking new tool for recording electrical signals from the brain. These probes—which were created by IMEC, a world-renowned nanoelectronics research center, in collaboration with four funding agencies (HHMI, Allen Institute, Gatsby Foundation, and Wellcome Trust)—will become publicly available in July 2018. Each device consists of a single hair-like shank containing nearly 1000 recording sites, each of which can measure voltage changes with sub-millisecond precision. Not only can these probes simultaneously record action potentials from an order of magnitude more neurons than was previously possible, but the entire package is small enough to be mounted on the head of a freely moving rodent. Given the relatively low cost of these reusable probes, they will become a new standard for electrophysiology. In order to use Neuropixels for our own experiments, the Allen Institute made it possible to stream Neuropixels data into an existing open-source software package, Open Ephys. Funding for this proposal would allow us to hire personnel to provide community-wide support for the integration of Open Ephys and Neuropixels. Support functions would include responding to user requests, maintaining the source code, improving the documentation, and simplifying the processing of installing and upgrading the software. This would serve to make Neuropixels accessible to all laboratories, regardless of their prior experience with electrophysiology. In addition, we plan to gather software plugins developed by users, make them more robust, and disseminate them through a centralized repository. Open Ephys already has a global network of volunteer developers, which we plan to leverage to expand the features of this software. Throughout the process, we will engage with the community via interviews, surveys, conferences, and annual workshops. While our main focus will be on providing support services for Neuropixels users, our efforts will also benefit the broader electrophysiology community. The field is currently lacking open standards for data acquisition, analysis, and visualization, leading to a large amount of redundant development efforts across laboratories. Establishing long-term support for a flexible, powerful, and open-source software platform would provide a terrific foundation for future progress. Thanks to Open Ephys’ modular plugin architecture, it will be easy to adapt when the next technological breakthrough occurs.

我们计划为Neuropixels问题提供软件支持服务，这是一种开创性的新工具 来自大脑的电信号。这些问题 - 由世界著名的IMEC创建 纳米电子研究中心，与四个资助机构合作（HHMI，艾伦学院，盖茨比 基金会和惠康信托基金会） - 将于2018年7月公开发售。每种设备包括一个 单头发的小腿包含近1000个记录位点，每个录音位点可以测量电压变化 亚毫秒精度。这些问题不仅可以简单地从订单中记录动作潜力 神经元比以前可能多的神经元多，但是整个包装足够小，可以安装 在一个自由移动的啮齿动物的头上。考虑到这些可重复使用的问题的相对低成本，它们将成为 电生理学的新标准。为了将Neuropixels用于我们自己的实验，艾伦学院 使将Neuropixels数据流式传输到现有的开源软件包，Open Ephys成为可能。 该建议的资金将使我们能够雇用人员为社区范围内的支持 开放式以弗斯和神经质子的整合。支持功能将包括响应用户请求， 维护源代码，改进文档，并简化安装的处理和 升级软件。这将使所有实验室都可以使神经固定能够访问 先前的电生理经验。此外，我们计划收集用户开发的软件插件， 使它们更健壮，并通过集中式存储库将它们传播。打开以弗斯已经有一个 我们计划利用志愿者开发人员的全球网络来扩展该软件的功能。 在整个过程中，我们将通过访谈，调查，会议和年度与社区互动 讲习班。虽然我们的主要重点将是为神经质子用户提供支持服务，但我们的努力将 也使更广泛的电生理学界受益。该领域目前缺乏数据的公开标准 获取，分析和可视化，导致跨越大量的冗余开发工作 实验室。建立对灵活，功能强大和开源软件平台的长期支持 为未来的进步奠定了绝佳的基础。感谢您打开Ephys的模块化插件体系结构，这将是 下一次技术突破时，易于适应。