Facility Core 5: Bioinformatics

设施核心 5：生物信息学

• 批准号: 7027891
• 负责人: DAVID W MOUNT
• 金额: $ 14.81万
• 依托单位: UNIVERSITY OF ARIZONA
• 依托单位国家: 美国
• 财政年份: 2006
• 资助国家: 美国
• 起止时间: 2006-04-01 至 2011-03-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7027891
• 关键词: bioinformatics; biomedical facility; data collection methodology /evaluation; environmental exposure; functional /structural genomics; hazardous substances; information systems; mass spectrometry; proteomics

Two major advances have recently taken place in biological research that underscore the need for a Bioinformatics Facility Core (BFC) in the Southwest Environmental Health Sciences Center (SWEHSC). One is the availability of very large amounts of sequence data from various genome projects. The second is the collection of very large biological data sets such as (i) gene and tissue microarray data for testing gene and protein expression profiles, (ii) sequence, structural and molecular interaction data from the analysis of proteins and protein complexes, and (iii) the acquisition of data on sequence polymorphisms (SNPs) that influence disease, drug sensitivities and other biological properties of cells and tissues. To use these data effectively, investigators need to store, share and interpret these data sets, and assistance with (a) the development of local computer tools for data storage and analysis, (b) accessing remote databases and information on the human and mouse genomes and proteins, (c) data analysis and modeling and (d) suitable experimental designs for large data sets e.g. cDNA spotted microarrays for gene expression measurements. The overall objectives of the BFC are to meet the collective needs of SWEHSC researchers, students, and laboratory staff with computational support for management, analysis, display and integration of these genomic and proteomics data. These objectives will be achieved through the following Specific Aims: 1. Design or use existing data models for informatics support of proteomics and genomics data; use these models to develop relational databases and XML formats for storing and the sharing all of the mass spectrometry data generated by the Proteomics Facility Core (PFC) and genomics data generated by the Genomics Facility Core (GFC); integrate the proteomics and genomics data, and provide straightforward web access to these data and data analysis tools to SWEHSC investigators. 2. Advance the analysis of SEQUEST searches and results of cDNA microarray experiments by providing more detailed and specific information about the peptides and genes under investigation, and the affected metabolic pathways and regulatory systems. 3. Provide tools for dynamic queries/data mining to discover data relationships and patterns hi the Proteomics and Genomics data sets. These search tools will provide (i) new molecular markers for detection of disease and of environmental responses, (ii) a basis for developing new hypotheses, and (iii) ways to advance the research goals of SWEHSC researchers.

生物学研究最近取得了两项重大进展，强调了对 西南环境健康科学中心 (SWEHSC) 的生物信息学设施核心 (BFC)。一 是来自各种基因组项目的大量序列数据的可用性。第二个是 收集非常大的生物数据集，例如（i）基因和组织微阵列数据，用于测试基因和 蛋白质表达谱，(ii) 蛋白质分析的序列、结构和分子相互作用数据 和蛋白质复合物，以及（iii）获取影响序列多态性（SNP）的数据 疾病、药物敏感性以及细胞和组织的其他生物学特性。为了有效地利用这些数据， 研究人员需要存储、共享和解释这些数据集，并协助 (a) 开发本地数据集 用于数据存储和分析的计算机工具，(b) 访问远程数据库和有关人类和动物的信息 小鼠基因组和蛋白质，(c) 数据分析和建模，以及 (d) 适合大规模实验的实验设计 数据集例如用于基因表达测量的 cDNA 点样微阵列。 BFC的总体目标 旨在通过计算满足 SWEHSC 研究人员、学生和实验室工作人员的集体需求 支持这些基因组和蛋白质组数据的管理、分析、显示和集成。这些 将通过以下具体目标来实现目标： 1. 设计或利用现有数据模型为蛋白质组学和基因组学数据提供信息学支持；使用这些 模型来开发关系数据库和 XML 格式以存储和共享所有海量数据 由蛋白质组学设施核心 (PFC) 生成的光谱数据和由 基因组学设施核心（GFC）；整合蛋白质组学和基因组学数据，并提供简单的 SWEHSC 调查人员可以通过网络访问这些数据和数据分析工具。 2. 通过提供以下信息，推进 SEQUEST 搜索和 cDNA 微阵列实验结果的分析 有关正在研究的肽和基因的更详细和具体的信息，以及 影响代谢途径和调节系统。 3. 提供动态查询/数据挖掘工具，以发现数据关系和模式 蛋白质组学和基因组学数据集。这些搜索工具将提供（i）新的分子标记 检测疾病和环境反应，(ii) 制定新假设的基础，以及 (iii) 推进 SWEHSC 研究人员研究目标的方法。