Comparative Genomics and Bioinformatics Core

比较基因组学和生物信息学核心

基本信息

批准号：
10474493
负责人：
Laura A Cox
金额：
$ 7.62万
依托单位：
UNIV OF NORTH CAROLINA CHAPEL HILL
依托单位国家：
美国
项目类别：
财政年份：
2021
资助国家：
美国
起止时间：
2021-09-01 至 2022-12-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/10474493
关键词：
ATAC-seq Affect Agreement Archives Binding Bioinformatics Chromatin Data Databases Deposition Diagnosis Diagnostic Disease Endometrial Stromal Cell Endometrium Ensure Epithelial Cells Foundations Functional disorder Genes Genetic Transcription Genomics Goals Human Individual Infertility Laboratories Lesion Literature Macaca mulatta Marsupialia Methodology Modeling Molecular Molecular Analysis Monkeys Mus Pathway Analysis Pathway interactions Peritoneal Fluid Phase Plasma Practice Management Process Publishing Research Personnel Rhesus Rodent Role SIRT1 gene Sampling Therapeutic Tissue Sample Tissues United States National Institutes of Health Woman comparative genomics data management data sharing data warehouse endometriosis epigenome epigenomics genetically modified cells genome-wide improved innovation metabolome metabolomics nonhuman primate nuclease phenotypic data precision medicine public database success tool transcriptome transcriptome sequencing transcriptomics

项目摘要

Comparative Genomics And Bioinformatics Core SUMMARY/ABSTRACT The Comparative Genomics and Bioinformatics (CGB) Core will provide state-of-the-art comparative genomic and bioinformatic analyses, and data warehousing to support the overarching goal of the P01 to improve our understanding of endometriosis disease pathophysiology in women and provide a foundation for improving treatment. The scientific premise that evolutionarily conserved genomic features inform function is well- established. An innovative aspect of the Core is the use of comparative genomics in humans, monkeys and mice, including transcriptomics and epigenomics, to identify evolutionarily conserved pathways central to endometriosis pathophysiology. The CGB Core has 4 Specific Aims to support the overall goals of the P01: 1) Identify transcriptional pathways and networks associated with disease status in women (Projects 1&2), mice (Project 2), and rhesus macaques (Project 3); 2) Integrate transcriptome data with epigenome (chromatin) and metabolome data generated in the Projects to prioritize pathways and causal networks most likely to have regulatory roles in disease status; 3) Identify disease-associated genes, pathways, and causal networks that are conserved among the three species; and 4) Provide a data warehouse for organizing and sharing data generated in the CGB Core and the Projects, and comply with NIH data sharing requirements. The Core Leader Dr. Cox has extensive comparative genomic expertise that includes studies with marsupials, rodents, nonhuman primates, and humans. All methodologies, analysis tools, and data management practices proposed for the Core are routinely used and well-established in the Core Leader’s laboratory, supporting success of the CGB Core to achieve these aims. Successful completion of these aims will reveal molecular pathways and networks associated with disease status for each species and, by identifying those conserved among humans, mice and rhesus, will nominate regulators that are central to the disease process. Achieving these goals will contribute to a better understanding of the disease process which will inform diagnosis and treatment for long-lasting improvement in the lives of women suffering from endometriosis.

比较基因组学和生物信息学核心摘要/摘要比较基因组学和生物信息学 (CGB) 核心将提供最先进的比较基因组学和生物信息学分析以及数据仓库来支持 P01 的总体目标，以改善我们的了解女性子宫内膜异位症的病理生理学，为改善子宫内膜异位症奠定基础进化上保守的基因组特征决定了功能，这一科学前提是充分的。该核心的一个创新方面是在人类、猴子和人类中使用比较基因组学。小鼠，包括转录组学和表观基因组学，以确定进化保守的途径 CGB 核心有 4 个具体目标来支持 P01 的总体目标：1) 确定与女性（项目 1 和 2）、小鼠疾病状态相关的转录途径和网络（项目 2）和恒河猴（项目 3）；将转录组数据与表观基因组（染色质）和项目中生成的代谢组数据用于优先考虑最有可能具有的途径和因果网络 3) 识别与疾病相关的基因、途径和因果网络在三个物种之间保存；4）提供一个数据仓库来组织和共享生成的数据参与 CGB 核心和项目，并遵守 NIH 数据共享要求。拥有比较基因组专业知识，包括对有袋动物、啮齿动物、非人类的研究为核心提出的所有方法、分析工具和数据管理实践。在核心领导者的实验室中得到常规使用和完善，支持 CGB 核心的成功成功完成这些目标将揭示分子途径和网络。与每个物种的疾病状况相关，并通过识别人类、小鼠和小鼠中保守的那些恒河猴将提名对疾病过程至关重要的监管机构，这将有助于实现这些目标。更好地了解疾病过程，这将为长期的诊断和治疗提供信息改善患有子宫内膜异位症的妇女的生活。