AN IMPROVED SEARCH ALGORITHM FOR AUTOMATED IDENTIFICATION OF OXIDATION SITES

自动识别氧化位点的改进搜索算法

• 批准号: 8361803
• 负责人: JOSHUA S SHARP
• 金额: $ 3.54万
• 依托单位: UNIVERSITY OF GEORGIA
• 依托单位国家: 美国
• 财政年份: 2011
• 资助国家: 美国
• 起止时间: 2011-02-01 至 2012-01-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8361803
• 关键词: Algorithms; Collaborations; Data Analyses; Funding; Grant; Hydroxyl Radical; Manuals; Names; National Center for Research Resources; Post-Translational Protein Processing; Principal Investigator; Research; Research Infrastructure; Resources; Site; Source; United States National Institutes of Health; Validation; Work; cost; improved; oxidation; research study

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. In hydroxyl radical footprinting experiments, one of the major bottlenecks is in the data analysis. Due to the broad reactivity of hydroxyl radicals and the wide variety of oxidation products, it is very difficult to automate search algorithms for identification of sites of oxidation. Currently, manual validation and correction is necessary for all preliminary oxidation site assignments. A search algorithm named ByOnic was developed to allow for automated identification of a wide variety of post-translational modifications. This algorithm has been applied to hydroxyl radical footprinting with promising preliminary results. In collaboration with the developer of ByOnic, we will work to improve ByOnic for automated identification of sites of oxidation.

该子项目是利用资源的众多研究子项目之一 由 NIH/NCRR 资助的中心拨款提供。子项目的主要支持 并且子项目的主要研究者可能是由其他来源提供的， 包括其他 NIH 来源。 子项目可能列出的总成本 代表子项目使用的中心基础设施的估计数量， NCRR 赠款不直接向子项目或子项目工作人员提供资金。 在羟基自由基足迹实验中，主要瓶颈之一是数据分析。 由于羟基自由基的广泛反应性和多种多样的氧化产物，自动识别氧化位点的搜索算法非常困难。 目前，所有初步氧化位点分配都需要手动验证和校正。 开发了一种名为 ByOnic 的搜索算法，可以自动识别各种翻译后修饰。 该算法已应用于羟基自由基足迹，并取得了有希望的初步结果。 我们将与 ByOnic 的开发商合作，努力改进 ByOnic 以自动识别氧化位点。