SEGMENTATION SOFTWARE FOR CRYOEM

CRYOEM 分割软件

• 批准号: 8363622
• 负责人: THOMAS GODDARD
• 金额: $ 1.68万
• 依托单位: UNIVERSITY OF CALIFORNIA, SAN FRANCISCO
• 依托单位国家: 美国
• 财政年份: 2011
• 资助国家: 美国
• 起止时间: 2011-07-01 至 2012-06-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8363622
• 关键词: 3-Dimensional; Algorithms; Architecture; Chimera organism; Computer software; Crowding; Cryoelectron Microscopy; Electron Microscopy; Environment; Funding; Grant; Hand; Imagery; Individual; Informatics; Knowledge; Maps; Molecular; National Center for Research Resources; Plug-in; Principal Investigator; Process; Research; Research Infrastructure; Resources; Source; Structure; United States National Institutes of Health; base; biocomputing; cost; density; interest; molecular assembly/self assembly; particle

This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. Primary support for the subproject and the subproject's principal investigator may have been provided by other sources, including other NIH sources. The Total Cost listed for the subproject likely represents the estimated amount of Center infrastructure utilized by the subproject, not direct funding provided by the NCRR grant to the subproject or subproject staff. A key step in determining the molecular architecture of cellular machinery using electron microscopy is being able to identify the individual molecules in 3-dimensional density maps. The molecules are tightly packed together making their boundaries hard to discern. Segmentation is the process of determining the regions of density maps for different molecules. We have developed a plug-in to UCSF Chimera called Segger that segments maps using automated computations based on the watershed algorithm, and allows hand-editing of the results to fix the inevitable mistakes guided by additional expert knowledge of the expected structures. The focus has been on electron microscopy of isolated molecular assemblies studied by single-particle electron cryo-microscopy, and there is strong interest in extending the software also be able to segment crowded cellular environments where a large number of diverse molecular assemblies are packed together.

该副本是利用资源的众多研究子项目之一 由NIH/NCRR资助的中心赠款提供。对该子弹的主要支持 而且，副投影的主要研究员可能是其他来源提供的 包括其他NIH来源。 列出的总费用可能 代表subproject使用的中心基础架构的估计量， NCRR赠款不直接向子弹或副本人员提供的直接资金。 使用电子显微镜确定细胞机械的分子结构的关键步骤是能够在3维密度图中识别单个分子。 分子紧紧地包装在一起，使它们的边界难以辨别。 分割是确定不同分子密度图区域的过程。 我们已经开发了一个名为Segger的UCSF嵌合体的插件，该插件使用基于流域算法的自动计算进行划分，并允许对结果进行手工编辑，以解决以预期结构的其他专业知识为指导的不可避免的错误。 重点是通过单粒子电子冷冻微观显微镜研究的分离分子组件的电子显微镜，并且对扩展软件的扩展也有浓厚的兴趣，还可以分割拥挤的细胞环境，在这些环境中，大量不同的分子组件被包装在一起。