SPIDER TRAINING AND DISSEMINATION

蜘蛛训练和传播

• 批准号: 8172280
• 负责人: Ardean Leith
• 金额: $ 2.16万
• 依托单位: WADSWORTH CENTER
• 依托单位国家: 美国
• 财政年份: 2010
• 资助国家: 美国
• 起止时间: 2010-04-07 至 2011-01-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8172280
• 关键词: Biological; Classification; Computer Retrieval of Information on Scientific Projects Database; Computer software; Data; Data Analyses; Documentation; Electron Microscopy; Electrons; Funding; Grant; Image; Institution; Internet; Java; Nature; Paper; Procedures; Protocols documentation; Research; Research Personnel; Resources; Running; Sampling; Source; Spiders; Training; United States National Institutes of Health; Work; abstracting; base; cluster computing; design; electron tomography; image processing; macromolecule; open source; particle; reconstruction; tool; web site

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. ABSTRACT: SPIDER is an extensive image-processing software package specifically designed for 3D reconstruction in electron microscopy. It has been evolving in Dr. Frank's Lab since the late 1970's and contains appropriate tools for single particle reconstruction, classification analysis, and electron tomography, and segmentation of volumes. The current distribution consists of: + SPIDER Fast command line and procedural computation engine + Web Point-and-click GUI for image interaction + JWeb Point-and-click Java-based GUI for image interaction + SPIRE Point-and-click GUI for running SPIDER procedures + PubSub Scripted mechanism for distributing work on a compute cluster Since released as open source in 2005 there have been more than 1500 downloads of the software by recognizable registered users. SPIDER's web site is: http://www.wadsworth.org/spider_doc/spider/docs/spider.html. Documentation for particle verification for single-particle, reference-based reconstruction using multivariate data analysis and classification is provided in the following paper: + Shaikh, T.R., Trujillo, R., LeBarron, J.S., Baxter, W.T. and Frank, J. (2008) Particle-verification for single-particle, reference-based reconstruction using multivariate data analysis and classification. J. Struct. Biol. 164: 41-48. PMCID 2577219. Use of SPIRE, with sample configuration files for typical single-particle procedures, is set out in the following paper, the data for which is included in the current SPIRE distribution: + Shaikh, T., Gao, H., Baxter, W., Asturias, F., Boisset, N., Leith, A. and Frank, J. (2008) SPIDER image processing for single-particle reconstruction of biological macromolecules from electron micrographs. Nature Protocols 3:1941-74. PMCID 2737740.

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。子项目及 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。 抽象的： SPIDER 是一款功能丰富的图像处理软件包，专为电子显微镜中的 3D 重建而设计。 自 20 世纪 70 年代末以来，Frank 博士的实验室一直在不断发展它，并包含用于单粒子重建、分类分析、电子断层扫描和体积分割的适当工具。 当前的分布包括： + SPIDER 快速命令行和程序计算引擎 + 用于图像交互的 Web 点击式 GUI + JWeb 用于图像交互的基于 Java 的点击式 GUI + SPIRE 用于运行 SPIDER 程序的点击式 GUI + 用于在计算集群上分配工作的 PubSub 脚本化机制 自 2005 年以开源方式发布以来，该软件已被知名注册用户下载了 1500 多次。 SPIDER 的网站是：http://www.wadsworth.org/spider_doc/spider/docs/spider.html。 以下论文提供了使用多元数据分析和分类进行单粒子、基于参考的重建的粒子验证文档： + Shaikh, T.R.、Trujillo, R.、LeBarron, J.S.、Baxter, W.T. 和 Frank, J. (2008) 使用多元数据分析和分类对单粒子、基于参考的重建进行粒子验证。 J.结构。生物。 164：41-48。 PMCID 2577219。 以下论文阐述了 SPIRE 的使用以及典型单粒子程序的示例配置文件，其数据包含在当前的 SPIRE 发行版中： + Shaikh, T.、Gao, H.、Baxter, W.、Asturias, F.、Boisset, N.、Leith, A. 和 Frank, J. (2008) 用于单粒子重建生物大分子的 SPIDER 图像处理电子显微照片。自然协议 3：1941-74。 PMCID 2737740。