GeroInformatics Core

Gero信息学核心

基本信息

批准号：
10044528
负责人：
Jonathan Daniel Wren
金额：
$ 17.68万
依托单位：
UNIVERSITY OF OKLAHOMA HLTH SCIENCES CTR
依托单位国家：
美国
项目类别：
财政年份：
2015
资助国家：
美国
起止时间：
2015-07-15 至 2025-05-31
项目状态：
未结题

来源：
https://reporter.nih.gov/project-details/10044528
关键词：
ATAC-seq Acarbose Age Aging Area Autophagocytosis Big Data Binding Sites Bioinformatics Biological Biology Biology of Aging Caloric Restriction Categories Cell Culture Techniques Cells ChIP-seq Chemicals Cities Communities Computer software Custom Data Data Analyses Data Set Data Sources Databases Development Disadvantaged Disease Estradiol Experimental Designs Frequencies Genes Genetic Transcription Genome Genomic Segment Genomics Geroscience Goals Grouping Guilt Human Human Resources Individual Informatics Institution Intervention Laboratories Literature Longevity Methods Methylation Molecular Molecular Analysis Molecular Biology Network-based Oklahoma Ontology Pathway interactions Phenotype Process Proteomics Publications Publishing Research Personnel Resveratrol Sampling Science Services Shock Sirolimus Software Tools Statistical Data Interpretation Technology Test Result Testing Tissues Troglodytinae Untranslated RNA Validation Visual age effect age related base bisulfite sequencing cell age cell type design disease phenotype experience experimental analysis experimental study genome annotation genome sciences high throughput analysis infancy innovation interest large datasets large scale data metabolomics method development novel programs proteostasis response senescence single cell sequencing single-cell RNA sequencing software development software infrastructure statistics stem cells transcription factor transcriptome transcriptome sequencing transcriptomics

项目摘要

The importance of analyzing large data sets (e.g., RNAseq, ChIP-seq, genomic studies, etc) are increasingly used for a global analysis of molecular changes with age or with aging interventions. However, access to the bioinformatics and statistical expertise necessary to analyze and interpret these data can be rate-limiting for many investigators, especially junior investigators. Additionally, in the age of Big Data, there is a need to focus the development of bioinformatics methods that will help investigators answer aging-related questions. The goal of the GeroInformatics Core is to assist investigators in Oklahoma City and throughout the nation with bioinformatics and statistical analyses specifically designed for investigators studying aging questions. The Core will accomplish this goal using established bioinformatic methods for data analysis, statistical support for experimental design and analysis, as well as using novel and innovative approaches for data analysis developed by the GeroInformatics Core, specifically designed to analyze aging data bases. The GeroInformatics Core consists of established experts in bioinformatics methods development, statistics, and the molecular biology of aging. Besides established approaches for data analysis, the GeroInformatics Core has developed bioinformatics methods to interrogate large-scale data from different perspectives, such as literature-based networks of related entities (e.g., genes, diseases, metabolites, concepts), transcriptional correlations compiled from public data sources to compare new experiments against, and annotations of genomic regions to search for experimental commonalities. Because of the growing interest in the use of single-cell RNA-sequencing to study the effect of aging on individual cells from cell cultures or tissues and because of the lack of methods to critically analyze single-cell transcriptomic data, a new function of the GeroInformatics Core in this application is to develop methods to iteratively analyze single-cell transcriptomic data and make these novel analyses available to the aging community.

分析大型数据集的重要性（例如RNASEQ，CHIP-SEQ，基因组研究等）越来越多地用于随着年龄或衰老而对分子变化进行全局分析干预措施。但是，获得必要的生物信息学和统计专业知识分析和解释这些数据可能是许多研究者的限制性，尤其是初级的调查人员。此外，在大数据时代，有必要集中于生物信息学方法将帮助调查人员回答与衰老有关的问题。目标 Geroinformatics核心是协助俄克拉荷马城和全国各地的调查员使用专门为研究衰老的研究人员设计的生物信息学和统计分析问题。核心将使用已建立的生物信息学方法来实现此目标分析，实验设计和分析的统计支持以及使用新颖和由GeroInformatics核心开发的数据分析的创新方法，特别是旨在分析衰老数据库。 GeroInformatics核心由已建立的核心组成生物信息学方法开发，统计和衰老分子生物学的专家。除了建立的数据分析方法外，Geroinformatics核心还开发了生物信息学方法是从不同角度询问大规模数据的方法，例如基于文献的相关实体网络（例如基因，疾病，代谢产物，概念），从公共数据源汇编的转录相关性比较新实验反对基因组区域的注释，以寻找实验共同点。由于对使用单细胞RNA测序的兴趣越来越兴趣研究从细胞培养或组织中对单个细胞的老化，并且由于缺乏方法批判性分析单细胞转录组数据，这是Geroinformatics核心的新功能该应用程序是为迭代分析单细胞转录组数据和使这些新颖的分析可用于老化社区。