MULTI-TIERED PROTEOMIC COMPUTE CLUSTER: BIOCHEMISTRY

多层蛋白质组计算集群：生物化学

• 批准号: 7335340
• 负责人: DAVID ROBINSON GOODLETT
• 金额: $ 32万
• 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/7335340
• 关键词: biochemistry; 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.

该子项目是利用由NIH/NCRR资助的共享仪器赠款提供的资源的许多研究子项目之一。子项目和研究者（PI）可能从另一个NIH来源获得主要资金，因此可以在其他CRISP条目中表示。列出的机构是用于资助的，不一定是研究者的机构。描述（由申请人提供）：本提案的目标是为从事生物医学研究的华盛顿大学健康科学中心的主要研究者获得购买多层蛋白质组计算（MFC）集群的资金。MPC将位于健康科学中心的药学质谱学院（SOP MS）设施内，该设施作为UW Pi希望进行蛋白质组学实验的收费服务操作，并且是UW校园内唯一的此类设施。SOP MS设施目前有一个10节点的计算集群，用于处理基于质谱的蛋白质组学实验，但没有用于蛋白质折叠。MPC将把这一能力扩大20倍。传统的假设驱动的蛋白质化学研究和假设生成的研究，使蛋白质组学技术将利用MPC集群。蛋白质组学和基于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）重新折叠单个蛋白质，2）重新折叠整个蛋白质组，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）搜索单个蛋白质上的多个预期翻译后修饰（PTM），6）搜索基于MS的蛋白质组数据以获得多个未怀疑的PTM，和7）定义蛋白质组。最初，MPC集群将用于支持药学、医学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PI都将使用SOP MS设施来访问计算能力。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）和在UW附属Harbor view医学中心研究的其他肺损伤疾病，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）革兰氏阴性生物体中的疫苗候选物和治疗靶标，6）在药物诱导的肝病条件下的蛋白质的亚细胞作图，和8）毒性蛋白质组学。