A web platform for integrative genomic analysis in aging

用于衰老综合基因组分析的网络平台

基本信息

批准号：
7575726
负责人：
XIANGHONG Jasmine ZHOU
金额：
$ 16.71万
依托单位：
UNIVERSITY OF SOUTHERN CALIFORNIA
依托单位国家：
美国
项目类别：
财政年份：
2008
资助国家：
美国
起止时间：
2008-03-01 至 2011-02-28
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/7575726
关键词：
Address Age Aging Ally Animal Model Atlases Bioinformatics Biological Biological Process Caenorhabditis elegans Cell Differentiation process Chronic Disease Communities Data Data Set Data Sources Databases Deposition Development Gap Junctions Gene Expression Genes Genetic Genome Genomics Human Inflammatory Internet Knowledge Laboratories Link Literature Malignant Neoplasms Measurement Measures Methods Microarray Analysis Mining Modeling Mus Organism Pathway interactions Pattern Phase Rattus Recurrence Reporting Research Resources Saccharomyces cerevisiae Signal Transduction System Tissues Transcription Regulation Pathway Transcriptional Regulation Vascular Diseases Work Yeasts age related aging gene base data integration data sharing design fly genome sequencing high throughput technology improved novel protein protein interaction research study tool user-friendly web interface

项目摘要

DESCRIPTION (provided by applicant): The recent development of high-throughput technologies generated enormous genomic data to understand the genetic basis of aging. For example, more than eighty microarray studies have directly addressed aging-related expression patterns in diverse model organisms and under different conditions. However, efficient exploitation of this vast amount of microarray data is frustrated by the lack of bioinformatics resources to enable convenient cross-laboratory searches of primary array signals. We have develop the web-database Gene Aging Nexus (GAN) freely accessible to the biogerontological-geriatric research community to query/analyze/visualize various aging-related genomic data sources, in particular, microarray data. In this proposal, we will continue the development of GAN. In particular, (1) We will expand the central web database for aging microarray data of six species: human (H. sapiens), rat (R. norvegicus), mouse (M. musculus), `fly' (D. melanogaster), `worm' (C. elegans), and yeast (S. cerevisiae). (2) We will implement a set of novel tools for cross-platform microarray data integration and analysis, and also implement useful methods reported in the literature. (3) We will incorporate other genomic data sources, such as biological pathways, transcription regulation, protein-protein interactions, genome sequences, and literature knowledge. By integrating such data, users will be able to better understand and interpret the results derived from array analysis, to assign unknown genes to aging-related pathways, and to predict transcriptional regulation. GAN could help launch the next phase of evaluating possible universals in aging-related gene expression in tissues of diverse organisms. The construction of the GAN platform and the associated analysis of a large number of public aging genomic data could constitute one of the largest bioinformatics undertakings in aging research. GAN could help launch the next phase of evaluating possible universals in aging-related gene expression in tissues of diverse organisms, and facilitates the systems understanding of aging.

描述（由申请人提供）：高通量技术的最新发展产生了巨大的基因组数据，以了解衰老的遗传基础。例如，超过80个微阵列研究直接解决了不同模型生物和不同条件下与衰老相关的表达模式。但是，由于缺乏生物信息学资源，可以有效地剥削大量的微阵列数据，以实现对主要阵列信号的方便跨劳动搜索。我们已经开发了可自由访问的Web数据库基因衰老Nexus（GAN），可以自由访问生物生物学论研究社区，以查询/分析/可视化各种与衰老相关的基因组数据源，特别是微阵列数据。在此提案中，我们将继续发展GAN。特别是（1）我们将扩展六种衰老微阵列数据的中央网络数据库：人（H. sapiens），大鼠（R. norvegicus），小鼠（M. musculus），“飞蝇”（D. melanogaster），“蠕虫”（蠕虫），“虫”（C. elegrans）和酵母（S. cerevisiae）。（2）我们将实施一组新型工具，用于跨平台微阵列数据集成和分析，并实施文献中报道的有用方法。（3）我们将结合其他基因组数据源，例如生物途径，转录调节，蛋白质 - 蛋白质相互作用，基因组序列和文献知识。通过集成此类数据，用户将能够更好地理解和解释从数组分析中得出的结果，将未知基因分配给与衰老相关的途径，并预测转录调节。 GAN可以帮助启动下一阶段，以评估不同生物体组织中与衰老相关的基因表达中可能的普遍性。 GAN平台的构建以及大量公共老化基因组数据的相关分析可能构成老化研究中最大的生物信息学事业之一。 GAN可以帮助启动下一阶段，以评估不同生物体组织中与衰老相关的基因表达中可能的普遍性，并促进系统对衰老的理解。