La Jolla Interdisciplinary Neuroscience Center Cores - Bioinfo core Salk

拉霍亚跨学科神经科学中心核心 - Bioinfo 核心 Salk

基本信息

批准号：
7925709
负责人：
STUART A LIPTON
金额：
$ 17.07万
依托单位：
SANFORD BURNHAM PREBYS MEDICAL DISCOVERY INSTITUTE
依托单位国家：
美国
项目类别：
财政年份：
2009
资助国家：
美国
起止时间：
2009-09-01 至 2011-08-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/7925709
关键词：
Amino Acid Sequence Appointment Archives Area Binding Biochemical Pathway Bioinformatics Biological Models Biometry Cancer Center Cells Center Core Grants Chemicals Complex Computer Simulation Computer software Consult Core Facility Custom Data Data Analyses Data Collection Data Set Data Storage and Retrieval Databases Educational Curriculum Elements Environment Faculty Familiarity Gene Expression Genes Genomics Grant Individual Informatics Institutes Institution Joints Laboratories Link Maintenance Malignant Neoplasms Methods Mining Minor Mission Molecular Models Molecular Profiling Molecular Structure Neurosciences Neurosciences Research Paper Peptide Sequence Determination Process Protein Sequence Analysis Protein Structure Databases Proteins Proteomics Protocols documentation PubMed Public Domains Publishing Quantitative Structure-Activity Relationship Research Personnel Resources Retrieval Role Screening procedure Series Services Staging Structure Students Systems Biology Technology Testing Time Training Training Support United States National Institutes of Health comparative data management data mining data modeling data sharing member molecular modeling nervous system disorder programs scientific computing small molecule libraries supercomputer tool virtual

项目摘要

BIOINFORMATICS AND SYSTEMS BIOLOGY/DATA MANAGEMENT CORE 1. MAIN OBJECTIVES AND NEW DIRECTIONS The Bioinformatics and Systems Biology/Data Management Core is an existing Core in the Cancer Center at BIMR. Similar cores exist at The Salk Institute and UCSD. In all three cases neuroscientists have limited or no access to these cores and have to rely of informal, personal links for bioinformatics and data management support. This NIH Neuroscience Blueprint Core Center Grant will make these facilities available to Neuroscientists on the La Jolla Torrey Pines Mesa. The Core will be headquartered at BIMR with satellite facilities, linked electronically, at The Salk and the UCSD Supercomputer facility. Director Dr. Adam Godzik is located at BIMR and Co-Director Gerhard Manning at The Salk Institute (both Godzik and Manning are members of the UCSD Supercomputer Facility and thus have access at UCSD as well). The mission of this Core is three-fold. First, the Facility will provide support and training for a set of over 100 publicly available informatics programs that can be used by neuroscientists. Second, the Facility will create a virtual environment for archiving, analyzing, and sharing data on specific proteins that are studied in individual laboratories that are part of this NIH Neuroscience Blueprint Center Core Grant. Similar to the "Cancer Molecule Pages Database" being developed by the Burnham Cancer Center, the "Neuroscience Molecule Pages database" will display many important aspects of individual proteins (sequence and structural information, involvement in biochemical pathways, and links to key papers published on the protein) involved in neurological diseases. Third, and most significantly, the Facility will generate integrated tools for archiving, analyzing, and disseminating information generated in four of the other Neuroscience Center Core Facilities: High Throughput Cell Analysis Facility, the Gene Analysis Facility, the Proteomics Facility and the Chemical Library Screening Facility. Each of these Facilities will generate massive volumes of data. The role of the Informatics Facility will be to establish automated methods of collecting and analyzing the data; and to generate query protocols (automated where possible) for probing the data sets to identify features of significance. It is the intent of the Facility to create a relational database where investigators can make simultaneous queries across data from all four Facilities, across data archived from individual laboratories, and information in the public domain (PubMed, USPTO, PDB etc.).

生物信息学和系统生物学/数据管理核心一、主要目标和新方向生物信息学和系统生物学/数据管理核心是现有的核心 BIMR 癌症中心。索尔克研究所和加州大学圣地亚哥分校也有类似的核心。在所有三种情况下神经科学家对这些核心的访问有限或无法访问，并且必须依赖非正式的个人联系生物信息学和数据管理支持。 NIH 神经科学蓝图核心中心格兰特将为拉霍亚托利松台地的神经科学家提供这些设施。这 Core 总部将设在 BIMR，并在 The Salk 和 The Salk 设有以电子方式连接的卫星设施。加州大学圣地亚哥分校超级计算机设施。董事 Adam Godzik 博士位于 BIMR，联合董事 Gerhard 索尔克研究所的曼宁（Godzik 和曼宁都是 UCSD 超级计算机的成员）设施，因此也可以访问 UCSD）。该核心的使命有三重。首先，该机构将为 100 多个公开信息学项目提供支持和培训可供神经科学家使用。其次，该设施将创建一个虚拟环境归档、分析和共享各个实验室研究的特定蛋白质的数据这是 NIH 神经科学蓝图中心核心拨款的一部分。类似于“癌症分子伯纳姆癌症中心正在开发“页面数据库”，“神经科学分子页面数据库”将显示单个蛋白质的许多重要方面（序列和结构信息、参与生化途径以及发表的有关蛋白质的关键论文的链接）涉及神经系统疾病。第三，也是最重要的一点，该基金将产生综合用于归档、分析和传播其他四个中生成的信息的工具神经科学中心核心设施：高通量细胞分析设备、基因分析设备设施、蛋白质组学设施和化学图书馆筛选设施。这些设施中的每一个将产生海量的数据。信息学设施的作用是建立收集和分析数据的自动化方法；并生成查询协议（自动在可能的情况下）用于探测数据集以识别重要特征。这是该组织的意图创建关系数据库的设施，调查人员可以在其中同时进行查询来自所有四个设施的数据、各个实验室存档的数据以及公共领域（PubMed、USPTO、PDB 等）。