CD: Bioinformatics Core

CD：生物信息学核心

• 批准号: 7507395
• 负责人: HAROLD R GARNER
• 金额: $ 9.1万
• 依托单位: UT SOUTHWESTERN MEDICAL CENTER
• 依托单位国家: 美国
• 财政年份: 2008
• 资助国家: 美国
• 起止时间: 2008-09-01 至 2013-04-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/7507395
• 关键词: Adverse event; Area; Atlases; Basic Science; Bioinformatics; Biostatistics Core; Cancer cell line; Candidate Disease Gene; Cell Line; Class; Clinical; Clinical Data; Code; Collaborations; Collection; Complement; Computational Biology; Computer software; Computers; Confidentiality of Patient Information; Data; Data Analyses; Data Collection; Data Element; Data Security; Data Set; Databases; Deposition; Development; Ensure; Environment; Epithelial Cells; Experimental Designs; Facility Construction Funding Category; Genetic; Genomics; Goals; Information Management; Institution; Internet; Label; Laboratories; Literature; Lung; Maintenance; Malignant neoplasm of lung; Medical center; Methods; Mining; Monitor; Multicenter Studies; Online Systems; Ontology; Pathology; Patients; Primary Neoplasm; Procedures; Proteomics; Quality Control; Reagent; Reporting; Reproduction spores; Research; Research Ethics Committees; Research Infrastructure; Research Personnel; Resort; Resources; Safety; Sampling; Semantics; Sequence Analysis; Side; Site; Standardization; System; Techniques; Technology; Testing; Texas; Text; Translational Research; Universities; University of Texas M D Anderson Cancer Center; anticancer research; cancer genome; cluster computing; computer based Semantic Analysis; computerized data processing; data integration; data management; data mining; data modeling; follow-up; new technology; patient safety; pre-clinical; quality assurance; research study; success; text searching; tool; transcriptomics; user-friendly; web-accessible

The University of Texas SPORE in Lung Cancer has Projects and Cores at both the University of Texas Southwestern Medical Center (UTSW, Dallas, TX) and the University of Texas M.D. Anderson Cancer Center (UTMDACC, Houston, TX) sites that involve multiple clinical and basic investigators. These Projects and Cores and the reagents and large datasets generated need to be analyzed by, and shared between SPORE investigators, Projects, and Cores and also need to be shared with investigators at other institutions and with other Lung Cancer SPOREs. In addition, bioinformatics tools are needed to help store, extract, manipulate and interpret this data. Also this data needs to have reliable backup. Finally, there is a large amount of new data being reported in the literature and deposited into accessible databases to which our SPORE investigators need access. These needs led to the creation and development of this Bioinformatics Core (Core D). The goal of this Core is to develop and maintain database integration and a data sharing website of information developed in the Projects and Cores that is important to many SPORE investigators as well as aid in the development and use of data analysis mining tools in support of the projects of this SPORE. This Core must deploy these enabling technologies to meet the needs of all of the SPORE Projects and Cores. After de-identification of patient information in SPORE Pathology Core B, this Core will help SPORE investigators gather complete data sets on SPORE laboratory and clinical samples, as well as publicly available datasets, interface these datasets with the SPORE Biostatistics Core (Core C), and then assist SPORE investigators and CORE C in the interpretation of these data using data mining techniques. This includes interaction with other Lung Cancer SPOREs and institutions. Other facilities include educational modules/classes, identification/testing of new technologies/methods of potential value to all SPORE researchers, and the large complement of computational codes and databases made available on our servers at http://spore.swmed.edu. Software, available over the web or via downloadable modules for the analysis of expression data, genomics experimental design, text mining and DMA sequence analysis was produced and is used by SPORE researchers. This Core has 4 specific aims: 1. Development of internet accessible databases for data sharing and analysis, and development of computational biology, resources; 2. Development of a distributed computational infrastructure for integrated data management and analysis; 3. Develop and perform data quality and assurance procedures. 4. Enhance and maintain the SPORE web site. This Core is led by Dr. Garner (with aid from Dr. Ahn for clinical data sharing issues) and Dr. Almeida that are both area experts and have each developed important components for this system and have been pioneering in data-sharing efforts at their respective institutions.

得克萨斯大学肺癌孢子在得克萨斯大学和得克萨斯大学都有项目和核心 西南医学中心（UTSW，达拉斯，TX）和德克萨斯大学医学博士。安德森癌症 中心（UTMDACC，Houston，TX），涉及多名临床和基础研究者。这些项目 核心和试剂以及生成的大型数据集需要由以下人员进行分析并共享： SPORE调查人员、项目和核心，还需要与其他机构的调查人员共享 和其他肺癌孢子。此外，还需要生物信息学工具来帮助储存、提取、 操纵和解释这些数据。这些数据也需要有可靠的备份。最后，有一个大的 大量的新数据被报告在文献中，并存入可访问的数据库，我们 SPORE调查人员需要访问权限。这些需求导致了这种创造和发展。 生物信息学核心（核心D）。该核心的目标是开发和维护数据库集成， 数据共享网站的信息开发的项目和核心，是重要的许多孢子 调查人员，并协助开发和使用数据分析挖掘工具，以支持 这个项目的孢子。这个核心必须部署这些使能技术，以满足所有 SPORE项目和核心。在SPORE病理核心B中对患者信息进行去识别后， 该核心将帮助SPORE研究人员收集有关SPORE实验室和临床的完整数据集 样本以及公开可用的数据集将这些数据集与SPORE生物统计学核心接口 (Core C），然后协助SPORE调查人员和CORE C使用数据解释这些数据 采矿技术这包括与其他肺癌SPORE和机构的互动。其他设施 包括教育单元/课程，确定/测试具有潜在价值新技术/方法， 所有的SPORE研究人员，以及大量的计算代码和数据库 在我们的服务器http://spore.swmed.edu。软件，可通过网络或通过可下载的模块获得， 表达数据分析、基因组学实验设计、文本挖掘和DNA序列分析， 它是由SPORE研究人员生产和使用的。该核心有四个具体目标：1。发展互联网 可访问的数据库，用于数据共享和分析，并开发计算生物学资源; 2. 为综合数据管理和分析开发分布式计算基础设施; 3. 制定和执行数据质量和保证程序。4.增强和维护SPORE网站 绝佳的价钱该核心由Garner博士（在Ahn博士的帮助下处理临床数据共享问题）和Almeida博士领导 他们都是该领域的专家，都为这个系统开发了重要的组件， 在各自机构的数据共享工作中发挥先锋作用。