Core--DNA microarray & homology modeling

核心--DNA微阵列

• 批准号: 6580387
• 负责人: ROBERT H RICE
• 金额: $ 16.52万
• 依托单位: UNIVERSITY OF CALIFORNIA AT DAVIS
• 依托单位国家: 美国
• 财政年份: 2002
• 资助国家: 美国
• 起止时间: 2002-04-01 至 2003-03-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/6580387
• 关键词: biomedical facility; chemical structure; data management; environmental exposure; environmental toxicology; gene expression; hazardous substances; microarray technology; subtraction hybridization; toxicant interaction

The DNA Microarray and Homology Modeling Core will have several major functions. First it will be a resource for laboratories to examine how exposure to toxic agents affects gene expression. Laboratories will discus with Core personnel (Project Leaders, Senior Investigators, or PGR) projected experiments so that practical plans can be developed. Such discussion will lead to discussions whether a given problem is addressed best (a) by generating a limited cDNA array by subtractive hybridization, (b) using a subset of cDNAs available in the Core repository, or (c) through a full array of cDNAs available in the repository. When a subtractively hybridized array is considered the appropriate approach, the Core will assist in its generation by representational difference analysis, a technique with which Dr. Gregg (Senior Investigator) has much experience. As the Core expands its repository of cDNA clones, the emphasis is anticipated to shift gradually to larger arrays. This will be true particularly in the case of human genes, for which we already have at our disposal nearly 10,000 clones through the effects of Dr. Wu (Senior Investigator) and colleagues. The Core will prepare arrays for Superfund experiments, conduct the hybridization and scanning, present the results to the labs and help with the interpretations. A second major function of the Core will be in 3-D homology modeling. This will permit Superfund investigators to examine protein-toxicant interactions electronically, thereby gaining valuable mechanistic information that can be applied to other potential targets. The third major junction of the Core is in bioinformatics. This will consist largely of data management, assisting Superfund investigators with data analysis and database searchers and helping investigators utilize the campus Life Sciences Informatics Program. Initial data handling will be in this core. As data sets become larger they will be transferred to the Statistics Core B.

DNA 微阵列和同源建模核心将具有几个主要功能。首先，它将成为实验室检查有毒物质暴露如何影响基因表达的资源。实验室将与核心人员（项目负责人、高级研究人员或 PGR）讨论预计的实验，以便制定切实可行的计划。此类讨论将引发讨论是否可以最好地解决给定问题（a）通过消减杂交生成有限的 cDNA 阵列，（b）使用核心存储库中可用的 cDNA 子集，或（c）通过完整的 cDNA 阵列在存储库中可用。当减法杂交阵列被认为是合适的方法时，Core 将通过代表性差异分析来协助其生成，Gregg 博士（高级研究员）对此技术拥有丰富的经验。随着 Core 扩大其 cDNA 克隆库，预计重点将逐渐转向更大的阵列。对于人类基因来说尤其如此，通过吴博士（高级研究员）和同事的影响，我们已经拥有近10,000个克隆可供使用。核心将为超级基金实验准备阵列，进行杂交和扫描，向实验室展示结果并帮助解释。核心的第二个主要功能是 3D 同源建模。这将使超级基金研究人员能够以电子方式检查蛋白质与毒物的相互作用，从而获得可应用于其他潜在目标的有价值的机制信息。核心的第三个主要交叉点是生物信息学。这将主要包括数据管理，协助超级基金研究人员进行数据分析和数据库搜索，并帮助研究人员利用校园生命科学信息学项目。初始数据处理将在此核心中进行。随着数据集变得更大，它们将被转移到统计核心 B。