Stanford/Salk MoTrPAC Site for Genomes, Epigenomes and Transcriptomes

斯坦福/索尔克 MoTrPAC 基因组、表观基因组和转录组网站

基本信息

批准号：
10318103
负责人：
Stephen Montgomery
金额：
$ 273.67万
依托单位：
STANFORD UNIVERSITY
依托单位国家：
美国
项目类别：
财政年份：
2016
资助国家：
美国
起止时间：
2016-12-13 至 2024-11-30
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/10318103
关键词：
ATAC-seq Adipose tissue Age Algorithms Alleles Animals Athletic Bioinformatics Biological Blood Body Composition Cells Characteristics Chemicals Chromatin Chronic Communities Coordination and Collaboration DNA Methylation Data Data Analyses Data Set Disease Environment Exercise Generations Genes Genetic Genetic Polymorphism Genetic study Genome Genomics Genotype-Tissue Expression Project Goals Health Health Benefit Human Individual Investigation Maps Measures Medical Metabolic Methods Methylation Molecular Molecular Profiling Muscle Nucleic Acids Outcomes Research Output Participant Pathway interactions Persons Physical activity Physiological Pilot Projects Procedures Process Production Publications Quality Control Reporting Research Research Activity Research Design Research Personnel Risk Factors Robotics Sampling Science Signal Transduction Site Technology Therapeutic Time Tissue Banks Tissues Transducers Urine Variant Veterans Work circulating microRNA cohort cost data access data format data sharing differential expression epigenome epigenomics exosome expectation experience extracellular vesicles fitness functional genomics gene environment interaction high throughput technology human study improved innovation insertion/deletion mutation interest loss of function multiple omics new therapeutic target novel nucleic acid mapping physical inactivity preservation promoter public health relevance response sedentary sedentary lifestyle sex tool transcriptome transcriptomics whole genome

项目摘要

Lack of physical activity is central to numerous health problems. Despite this, we have limited understanding of the molecular components which confer the benefit of physical activity and their diverse impacts across tissues with respect to age, sex, genetics, environment and other objective physiologic, morphometric, and metabolic measures. Identifying these molecular signatures offers to provide new opportunities for treatment and therapeutics. The goal of the Molecular Transducers of Physical Activity in Humans Consortium (MoTrPAC) is to assemble a comprehensive map of the molecular changes that occur in response to physical activity and, when possible, relate these changes to the benefits of physical activity. This map will be greatly facilitated by the application of –omics technologies to identify exercise-responsive genes and to relate their benefits across multiple tissues and contexts. We propose to aid in the construction of this map as the Stanford/Salk MoTrPAC Genome, Epigenome and Transcriptome (GET) Chemical Analysis Center. We will leverage our production and analysis experience to engage in MoTrPAC study design, enable the production of high quality and low cost genomes, epigenomes and transcriptomes and facilitate and engage in bioinformatics analysis with the MoTrPAC Bioinformatics Center. Key activities will include coordination and collaboration with all the MoTrPAC sites from tissue management to data delivery. Through these activities we will sequence 3000 genomes and at least 40000 epigenomes and 40000 transcriptomes for samples collected at MoTrPAC animal and human study sites. Our site will engage in multiple levels of quality control from tissue collection to sequence mapping. Generated data in common data formats will be immediately available to MoTrPAC investigators and the Bioinformatics Center through the Google Cloud. In addition, as part of our proposed site, and in coordination with both the MoTrPAC Steering Committee and investigators, we will leverage our expertise in both studies of exosomes and chromatin accessibility sequencing with ATAC-seq to conduct two early pilots that aim to elucidate the systemic and molecular changes in response to physical activity. Additional features of our proposed site are analytical opportunities that include leveraging multiple exercise-related –omics data sets, such as the DGN study where we have genetic data, transcriptomes and exercise activity recorded for 922 people and have already identified multiple differentially expressed genes and gene-by-environment variants in response to exercise, and diverse and novel -omics methods for gene-by-environment, multi-omics and longitudinal data analysis. Our expectation is that this combination of production experience, exercise-relevant data and novel methods will support diverse and impact research outcomes in the MoTrPAC.

缺乏体育锻炼是许多健康问题的核心。尽管如此，我们有限了解分子成分，这些成分涉及体育锻炼的好处潜水员在年龄，性别，遗传学，环境和其他目标方面影响跨组织生理，形态计量学和代谢措施。确定这些分子特征提供为治疗和治疗提供新的机会。分子传感器的目标人类财团（MOTRPAC）的体育锻炼是为了整理一张综合图响应身体活动而发生的分子变化，并在可能的情况下将这些变化相关对体育锻炼的好处。该地图将通过–omics的应用大量准备识别运动响应基因并在多个时间安排中关联其益处的技术和上下文。我们建议作为斯坦福/萨克·莫尔帕克（Stanford/Salk Motrpac 基因组，表观基因组和转录组（GET）化学分析中心。我们将利用我们的从事MOTRPAC研究设计的生产和分析经验，使高生产质量和低成本的基因组，表观人体学和转录组，并促进和参与 Motrpac生物信息学中心的生物信息学分析。关键活动将包括协调并与从组织管理到数据传递的所有Motrpac站点进行协作。通过这些活动我们将对3000个基因组和至少40000个表观调查学和40000个转录组进行序列序列对于在Motrpac动物和人类研究地点收集的样品。我们的网站将参与多个层次从组织收集到序列映射的质量控制。以通用数据格式生成的数据 Motrpac调查人员和生物信息学中心将立即通过 Google Cloud。另外，作为我们提议的站点的一部分，并与Motrpac的两个协调指导委员会和调查人员，我们将利用我们在两项外泌体研究中的专业知识和使用ATAC-SEQ进行染色质访问性测序，以进行两个早期的飞行员，以阐明响应体育活动的全身和分子变化。我们建议的其他功能站点是分析机会，包括利用多个与运动有关的 - 组数据集，例如作为DGN研究，我们有922的遗传数据，转录组和运动活动人们已经确定了多个不同表达的基因和逐环境的基因响应锻炼的变体，潜水和新颖的 - 逐个环境基因的方法，多媒体和纵向数据分析。我们的期望是生产的结合经验，与运动相关的数据和新颖方法将支持多样化并影响研究 Motrpac的结果。

项目成果

期刊论文数量（3）

专著数量（0）

科研奖励数量（0）

会议论文数量（0）

专利数量（0）

Leveraging Mobile Technology for Public Health Promotion: A Multidisciplinary Perspective.

DOI：
10.1146/annurev-publhealth-060220-041643
发表时间：
2023-04-03
期刊：
ANNUAL REVIEW OF PUBLIC HEALTH
影响因子：
20.8
作者：
Hicks, Jennifer L.;Boswell, Melissa A.;Althoff, Tim;Crum, Alia J.;Ku, Joy P.;Landay, James A.;Moya, Paula M. L.;Murnane, Elizabeth L.;Snyder, Michael P.;King, Abby C.;Delp, Scott L.
通讯作者：
Delp, Scott L.

Dynamic DNA methylation: In the right place at the right time.