INCLUDING CHIMERA IN THE NRAMM AUTOMATED ELECTRON MICROSCOPY PIPELINE

该子项目是利用该技术的众多研究子项目之一 资源由 NIH/NCRR 资助的中心拨款提供。子项目和 研究者 (PI) 可能已从 NIH 的另一个来源获得主要资金， 因此可以在其他 CRISP 条目中表示。列出的机构是 对于中心来说，它不一定是研究者的机构。 该合作项目开发了软件，以使用 NRAMM 自动处理管道 (Appion) 中的 Chimera 可视化功能进行电子显微镜单粒子重建。 Appion 管道生成大型分子组装体的 3 维密度图，例如病毒、核糖体、蛋白酶体和细胞中的其他分子机器，其结构足够均匀，可以对许多样本进行平均。 该管道旨在将这种实验技术带给非该实验方法专家的研究人员。 这是国家自动分子显微镜资源的中心目标，该资源是由布里奇特·卡拉格 (Bridget Carragher) 指导的生物医学技术研究资源。 管道的可视化组件由 RBVI 开发的 Chimera 包处理。 将 Chimera 合并到管道中的工作涉及自动生成驻留在数据库中的管道生成数据集的标准视图的代码。 还计划提供更高级的功能，将 Chimera 会话包含在管道数据库中，允许用户在有用的标准视图（着色、切片、阈值处理、过滤等）中快速打开 Chimera 中的数据，作为更专业分析的起点。

This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. The subproject and investigator (PI) may have received primary funding from another NIH source, and thus could be represented in other CRISP entries. The institution listed is for the Center, which is not necessarily the institution for the investigator. This collaborative project develops the software to use Chimera visualization capabilities within the NRAMM Automated Processing Pipeline (Appion) for electron microscope single particle reconstructions. The Appion pipeline produces 3-dimensional density maps of large molecular assemblies such as viruses, ribosomes, proteasomes and other molecular machinery in the cell which has sufficiently uniform structure to allow averaging many specimens. The pipeline aims to bring this experimental technique to researchers who are not experts in this experimental methods. This is the central goal of the National Resource for Automated Molecular Microscopy, a Biomedical Technology Research Resource directed by Bridget Carragher. The visualization component of the pipeline is handled by the Chimera package developed by the RBVI. The effort to incorporated Chimera in the pipeline involves code that automatically produces standard views of pipeline generated data sets residing in a database. A more advanced capability to include Chimera sessions within the pipeline database that allow users to quickly open their data in Chimera in useful standard views (coloring, slicing, thresholding, filtering, ...) as a starting point for more specialized analysis is also planned.