MULTI-TIERED PROTEOMIC COMPUTE CLUSTER: PARKINSON'S DISEASE

多层蛋白质组计算集群：帕金森病

• 批准号: 7335342
• 负责人: DAVID ROBINSON GOODLETT
• 金额: $ 4万
• 依托单位: UNIVERSITY OF WASHINGTON
• 依托单位国家: 美国
• 财政年份: 2006
• 资助国家: 美国
• 起止时间: 2006-08-01 至 2007-07-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7335342
• 关键词: health; mass spectrometry; prions; protein folding; proteins; proteomics; schools

This subproject is one of many research subprojects utilizing the resources provided by a Shared Instrumentation 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 grant, which is not necessarily the institution for the investigator. DESCRIPTION (provided by applicant): The goal of this proposal is to secure funds to purchase a multi-tiered proteomic compute (MFC) cluster for University of Washington Health Sciences Center-based principal investigators engaged in biomedical research. The MPC will be located in the School of Pharmacy Mass Spectrometry (SOP MS) facility in the Health Sciences Center, which serves as a fee-for-service operation for UW Pi's wishing to conduct proteomic experiments, and is the only such facility on the UW campus. The SOP MS facility currently has a 10-node compute cluster for processing mass spectrometry-based proteomic experiments, but none for protein folding. The MPC will expand this capability 20-fold. Both traditional hypothesis-driven protein chemistry research and hypothesis-generating research enabled by proteomic techniques will utilize the MPC cluster. All aspects of proteomic and protein chemistry-based research will be supported. For example, we will use it to: 1) fold individual proteins de novo, 2) fold entire proteomes de novo, 3) elucidate protein-protein interactions via chemical cross-linking, 4) map out sub- cellular protein locations, 5) search for multiple anticipated post-translation modifications (PTM's) on individual proteins, 6) search MS-based proteomic data for multiple unsuspected PTM's, and 7) define proteomes. Initially, the MPC cluster will be for support of researchers in the Schools of Pharmacy, Medicine, and Public Health; eventually, however, any PI on campus or from the Seattle region utilizing the SOP MS facility will be given access to the compute power. Initial projects include the following areas of biomedical research: 1) acute respiratory distress syndrome (ARDS) and other lung injury diseases under investigation at the UW- affiliated Harbor view Medical Center, 2) prions and prion folding, 3) Apolipoprotein PTM's, 4) protein-protein cross-linking, 5) vaccine candidates and therapeutic targets in Gram-negative organisms, 6) sub cellular mapping of proteins under conditions of drug-induced liver disease, and 8) toxic-proteomics.

该子项目是利用 NIH/NCRR 资助的共享仪器补助金提供的资源的众多研究子项目之一。子项目和研究者 (PI) 可能已从另一个 NIH 来源获得主要资金，因此可以在其他 CRISP 条目中得到体现。列出的机构是资助机构，不一定是研究者的机构。描述（由申请人提供）：本提案的目标是获得资金，为华盛顿大学健康科学中心从事生物医学研究的主要研究人员购买多层蛋白质组计算 (MFC) 集群。 MPC 将位于健康科学中心的药学院质谱 (SOP MS) 设施内，该设施是 UW Pi 希望进行蛋白质组实验的收费服务，也是 UW 校园内唯一的此类设施。 SOP MS 设施目前拥有一个 10 节点计算集群，用于处理基于质谱的蛋白质组实验，但没有用于蛋白质折叠。 MPC 会将这一能力扩展 20 倍。传统的假设驱动的蛋白质化学研究和通过蛋白质组学技术实现的假设生成研究都将利用 MPC 集群。基于蛋白质组学和蛋白质化学的研究的各个方面都将得到支持。例如，我们将使用它来：1) 从头折叠单个蛋白质，2) 从头折叠整个蛋白质组，3) 通过化学交联阐明蛋白质-蛋白质相互作用，4) 绘制亚细胞蛋白质位置，5) 搜索单个蛋白质的多个预期翻译后修饰 (PTM)，6) 搜索基于 MS 的蛋白质组数据以查找多个未怀疑的 PTM，以及 7) 定义 蛋白质组。最初，MPC 集群将用于支持药学院、医学学院和公共卫生学院的研究人员；然而，最终，校园内或来自西雅图地区的任何使用 SOP MS 设施的 PI 都将获得计算能力。最初的项目包括以下生物医学研究领域：1）急性呼吸窘迫综合征（ARDS）和其他肺损伤疾病正在威斯康星大学附属港景医疗中心进行研究，2）朊病毒和朊病毒折叠，3）载脂蛋白PTM，4）蛋白质-蛋白质交联，5）革兰氏阴性生物体的候选疫苗和治疗靶点，6）亚细胞 药物引起的肝病条件下的蛋白质图谱，以及 8) 毒性蛋白质组学。