cryoEDU: An online curriculum and software platform for hands-on learning in single-particle cryoEM and cryoET

CryoEDU:用于单粒子 CryoEM 和 CryoET 实践学习的在线课程和软件平台

基本信息

  • 批准号:
    10436923
  • 负责人:
  • 金额:
    $ 11.88万
  • 依托单位:
  • 依托单位国家:
    美国
  • 项目类别:
  • 财政年份:
    2021
  • 资助国家:
    美国
  • 起止时间:
    2021-07-01 至 2024-06-30
  • 项目状态:
    已结题

项目摘要

cryoEDU: An online curriculum and software platform for hands-on learning in single- particle cryoEM and cryoET SUMMARY Single-particle cryogenic electron microscopy (cryoEM) has become a mainstream structural biology technique due to reduced burden of sample preparation, the capacity to solve integral membrane protein complex structures, and the ability to visualize large structurally heterogeneous macromolecular complexes at high resolution. As cryoEM expands, the nascent field of cryogenic electron tomography (cryoET) continues to achieve milestones – such as structure determination in situ – indicating that cryoET will soon become a core technology for structural and cell biologists for both in vitro and in vivo structural characterizations. In both cryoEM and cryoET, new users face a significant educational barrier: practitioners must understand concepts that range from biochemistry to physics of electron microscopes to computational image alignment algorithms. Although there are cryoEM workshops currently available address these concepts with hands-on training, the limited capacity and intimate format results in substantial oversubscription and an inability to train new cryoEM users en masse. As such, there exists a significant gap in training materials and resources that help users understand, analyze, interpret, and validate cryoEM data and structure determination. Towards this end, we propose to build an online educational platform focused on cryoEM/ET data processing called ‘cryoEDU’. The cryoEDU platform is built on three pillars: 1) self-paced online modular curricula; 2) hands-on data analysis in a cloud desktop environment; and 3) community engagement to facilitate information exchange related to cryoEM/ET data analysis. Online educational curricula will incorporate real cryoEM/ET data into learning modules on specific topics in addition to evaluations that highlight best practices and common pitfalls to help train learners in rigor for cryoEM/ET analysis. To ensure adequate data analysis training, we will allow users to submit simulated jobs and interact with cryoEM software using a cloud desktop environment. Importantly, users will not be running real time algorithms, but instead, we will pull results from a precalculated results database containing nearly all conceivable outcomes. The cloud desktop will enable users to make parameter choices and receive immediate results feedback, creating a new paradigm in cryoEM/ET data analysis learning. Finally, we will engage with the cryoEM/ET community by including testimonials on our website, highlighting decisions made by experts when analyzing data, and recording live conversations with primary authors on important cryoEM/ET publications. We recognize that cryoEM and cryoET continue to grow at a fast pace, which is why we expect our content to evolve with changes in the field and with user feedback via learning assessment and surveys. We believe that the cryoEDU platform will facilitate training data analysis and interpretation for cryoEM/ET by combining web content with interactive software job submission and practitioner interviews. The online training platform cryoEDU provides allows us to engage more learners, in particular small remote schools and universities, than achievable through in-person workshops without significant additional investment of resources.
CryoEDU:一个在线课程和软件平台,用于单机实践学习 粒子低温电磁场和低温电离辐射 摘要 单粒子低温电子显微镜已成为主流的结构生物学技术。 由于减少了样品制备的负担,因此能够解决完整的膜蛋白复合体 结构,以及在高分辨率下可视化大型结构异质大分子络合物的能力 决议。随着低温电子显微镜的扩展,低温电子断层扫描的新兴领域继续 取得里程碑--例如原位结构测定--表明低温ET将很快成为核心 结构和细胞生物学家用于体外和体内结构表征的技术。在这两个地方 新用户面临着一个巨大的教育障碍:从业者必须理解概念 从生物化学到电子显微镜物理学,再到计算机图像对准算法,应有尽有。 尽管目前有通过实践培训解决这些概念的CryoEM研讨会,但 有限的容量和亲密的格式导致大量超额认购,无法培训新的CryoEM 全体用户。因此,在帮助用户的培训材料和资源方面存在很大差距 理解、分析、解释和验证CryoEM数据和结构确定。为此,我们 建议建立一个专注于CryoEM/ET数据处理的在线教育平台,名为“CryoEDU”。这个 CryoEDU平台建立在三个支柱上:1)自定进度的在线模块课程;2)动手数据分析 在云桌面环境中;以及3)社区参与,以促进相关信息交换 对CryoEM/ET数据进行分析。在线教育课程将把真实的CryoEM/ET数据融入学习 除了强调最佳实践和常见陷阱的评估外,还提供了关于特定主题的模块 对学员进行严谨的低温EM/ET分析培训。为确保有足够的数据分析培训,我们将允许用户 提交模拟作业,并使用云桌面环境与CryoEM软件交互。重要的是,用户 不会运行实时算法,而是从预计算结果数据库中提取结果 几乎包含了所有可以想象到的结果。云桌面将使用户能够进行参数选择和 接收即时结果反馈,开创了CryoEM/ET数据分析学习的新范式。最后,我们 将通过在我们的网站上添加推荐信,突出所做的决定,与CryoEM/ET社区接触 由专家分析数据,并记录与主要作者就重要的CryoEM/ET进行的实时对话 出版物。我们认识到低温EM和低温ET继续快速增长,这就是为什么我们预计我们的 通过学习评估和调查,满足于随着领域的变化和用户的反馈而发展。我们 相信CryoEDU平台将通过以下方式促进对CryoEM/ET的培训数据分析和解释 将网络内容与交互式软件工作提交和从业者面试相结合。在线培训 CryoEDU提供的平台使我们能够让更多的学习者参与进来,特别是小型远程学校和 与不需要投入大量额外资源的面对面研讨会相比,在大学里更容易实现这一目标。

项目成果

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Michael Cianfrocco其他文献

Michael Cianfrocco的其他文献

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{{ truncateString('Michael Cianfrocco', 18)}}的其他基金

Mechanisms of kinesin motor protein inhibition
驱动蛋白运动蛋白抑制机制
  • 批准号:
    10686209
  • 财政年份:
    2022
  • 资助金额:
    $ 11.88万
  • 项目类别:
Mechanisms of kinesin motor protein inhibition
驱动蛋白运动蛋白抑制机制
  • 批准号:
    10518674
  • 财政年份:
    2022
  • 资助金额:
    $ 11.88万
  • 项目类别:
Determining the role of microtubules and motor proteins during early HIV-1 replication
确定微管和运动蛋白在早期 HIV-1 复制过程中的作用
  • 批准号:
    10161131
  • 财政年份:
    2021
  • 资助金额:
    $ 11.88万
  • 项目类别:
cryoEDU: An online curriculum and software platform for hands-on learning in single-particle cryoEM and cryoET
CryoEDU:用于单粒子 CryoEM 和 CryoET 实践学习的在线课程和软件平台
  • 批准号:
    10663238
  • 财政年份:
    2021
  • 资助金额:
    $ 11.88万
  • 项目类别:
Determining the role of microtubules and motor proteins during early HIV-1 replication
确定微管和运动蛋白在早期 HIV-1 复制过程中的作用
  • 批准号:
    10470740
  • 财政年份:
    2021
  • 资助金额:
    $ 11.88万
  • 项目类别:
cryoEDU: An online curriculum and software platform for hands-on learning in single-particle cryoEM and cryoET
CryoEDU:用于单粒子 CryoEM 和 CryoET 实践学习的在线课程和软件平台
  • 批准号:
    10222983
  • 财政年份:
    2021
  • 资助金额:
    $ 11.88万
  • 项目类别:

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