DEVELOPMENT OF SOFTWARE FOR AUTOMATED DATA ACQUISITION

自动数据采集软件的开发

• 批准号: 8170817
• 负责人: DAVID N MASTRONARDE
• 金额: $ 4.98万
• 依托单位: UNIVERSITY OF COLORADO
• 依托单位国家: 美国
• 财政年份: 2010
• 资助国家: 美国
• 起止时间: 2010-05-01 至 2011-04-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8170817
• 关键词: Bite; Computer Retrieval of Information on Scientific Projects Database; Data; Development; Dose; Funding; Grant; Hour; Institutes; Institution; Instruction; Intervention; Laboratories; Manuscripts; Microscope; Procedures; Process; Publications; Queensland; Research; Research Institute; Research Personnel; Resources; Running; Series; Source; Training; United States National Institutes of Health; Universities; Update; Work; data acquisition; improved; interest; programs; software development

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. Our program for automated tilt series acquisition, SerialEM, has continued to allow rapid data acquisition and effective use of our Tecnai microscopes. Efforts in the past year included the following developments. 1) The handling of data from 16-bit cameras and from 4-port readout cameras was improved after we obtained such a camera for our F20. 2) Remaining problems with montaging were worked out when Johanna Hoog from the EMBL used montaging extensively. 3) A relatively low-dose procedure was implemented for realigning the zero-loss peak when using an energy filter. The procedure is run automatically at a set interval during a tilt series and eliminates the need for operator intervention. 4) Installation procedures and instructions were improved, so that it is now easier to provide an initial package to new users and to provide and install program updates. SerialEM is now being used on at least three Tecnais in other laboratories (a T12 at the Burnham Institute, approximately 250/hours in 12 months; a TF20 at Scripps Research Institute, approximately 60 GB in 11 months; and a new TF30 at the University of Queensland, approximately 250 hours and approximately 90 GB of data in 7 months). Several other laboratories have either installed the program or obtained packages for it. SerialEM has been ported to run on a JEOL 3100 microscope by Tobin Fricke at the Lawrence Berkeley National Laboratories, and after some effort it now appears to run satisfactorily. Several laboratories with comparable microscopes would like to run the program, and JEOL USA, Inc. is interested in facilitating this process. An informal arrangement has been worked out whereby Jaap Brink from JEOL will help users to install the program and provide a first contact for training and assistance. A manuscript on SerialEM has been submitted for publication.

该副本是利用众多研究子项目之一 由NIH/NCRR资助的中心赠款提供的资源。子弹和 调查员（PI）可能已经从其他NIH来源获得了主要资金， 因此可以在其他清晰的条目中代表。列出的机构是 对于中心，这不一定是调查员的机构。 我们的自动倾斜系列采集程序Serialem继续允许快速获取数据并有效使用Tecnai显微镜。 过去一年的努力包括以下发展。 1）从16位相机和4端口读数摄像机中处理数据后，我们为F20获得了这样的摄像头后得到了改进。 2）当EMBL的Johanna Hoog广泛使用时，剩余的蒙太奇问题是解决的。 3）在使用能量滤波器时，实施了相对较低的剂量程序来重新调整零损失峰。 该过程在倾斜系列中以设定的间隔自动运行，并消除了对操作员干预的需求。 4）改进了安装过程和说明，因此现在更容易为新用户提供初始软件包，并提供和安装程序更新。 Serialem现在在其他实验室中至少用于三个Tecnais（伯纳姆研究所的T12，在12个月内约250/小时； Scripps Research Institute的TF20在11个月内约60 GB；昆士兰州大学的新TF30，大约250小时，大约250小时，大约90 gb的数据）。 其他几个实验室已经安装了该程序，要么为其获得了软件包。 Serialem已被托宾·弗里克（Tobin Fricke）在劳伦斯·伯克利国家实验室（Lawrence Berkeley National Laboratories）的JEOL 3100显微镜上运行，经过一番努力，现在似乎令人满意地运行。 几个具有可比显微镜的实验室希望运行该程序，Jeol USA，Inc。对促进此过程感兴趣。 已经制定了一个非正式的安排，从JEOL那里的Jaap边缘将帮助用户安装该程序并提供首次联系以培训和帮助。 关于Serialem的手稿已提交出版。