AUTOMATED DETECTION OF REGIONS OF INTEREST IN MEMBRANE TRANSPORTERS

自动检测膜转运蛋白感兴趣的区域

• 批准号: 8363594
• 负责人: KATHLEEN M GIACOMINI
• 金额: $ 1.68万
• 依托单位: UNIVERSITY OF CALIFORNIA, SAN FRANCISCO
• 依托单位国家: 美国
• 财政年份: 2011
• 资助国家: 美国
• 起止时间: 2011-07-01 至 2012-06-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8363594
• 关键词: Area; Detection; Exons; Funding; Genome; Grant; Image; Imagery; Informatics; Masks; Membrane Transport Proteins; National Center for Research Resources; Organism; Pharmacogenetics; Pilot Projects; Principal Investigator; Research; Research Infrastructure; Research Project Grants; Resources; Retrieval; Single Nucleotide Polymorphism; Source; United States National Institutes of Health; Visual; biocomputing; cost; information processing; insight; interest

This subproject is one of many research subprojects utilizing the resources provided by a Center grant funded by NIH/NCRR. Primary support for the subproject and the subproject's principal investigator may have been provided by other sources, including other NIH sources. The Total Cost listed for the subproject likely represents the estimated amount of Center infrastructure utilized by the subproject, not direct funding provided by the NCRR grant to the subproject or subproject staff. Previously, the NIH/GM-funded Pharmacogenetics of Membrane Transporters (PMT) research project restricted areas of single nucleotide polymorphism (SNP) discovery in membrane transporters to exons and short flanking sequences surrounding these exons, resulting in little leveraging of information available from other genome projects. However, by using conserved regions of sequence from other organisms surrounding the exon of interest additional insight can be gained into areas where functionally important SNPs may occur. Combining this information with repeat masking and graphical imaging allows for rapid visual detection of new SNP search spaces with a good prospect of successful PCR amplification. We are now extending a previous pilot study exploring this idea by automating the retrieval and processing of this information for 350 membrane transporters of interest.

该子项目是利用资源的众多研究子项目之一 由 NIH/NCRR 资助的中心拨款提供。子项目的主要支持 并且子项目的首席研究员可能是由其他来源提供的， 包括其他 NIH 来源。 子项目可能列出的总成本 代表子项目使用的中心基础设施的估计数量， NCRR 赠款不直接向子项目或子项目工作人员提供资金。 此前，NIH/GM 资助的膜转运蛋白药物遗传学 (PMT) 研究项目将膜转运蛋白中的单核苷酸多态性 (SNP) 发现限制在外显子和这些外显子周围的短侧翼序列上，导致很少利用其他基因组提供的信息项目。 然而，通过使用感兴趣的外显子周围其他生物体的序列保守区域，可以获得对可能出现功能上重要的 SNP 的区域的额外了解。 将此信息与重复掩蔽和图形成像相结合，可以快速视觉检测新的 SNP 搜索空间，并有成功 PCR 扩增的良好前景。 我们现在正在扩展之前的一项试点研究，通过自动检索和处理 350 个感兴趣的膜转运蛋白的信息来探索这一想法。