Core C: Bioinformatics Core

核心 C：生物信息学核心

• 批准号: 10620743
• 负责人: Zhengdong Zhang
• 金额: $ 23.59万
• 依托单位: UNIVERSITY OF ROCHESTER
• 依托单位国家: 美国
• 财政年份: 2014
• 资助国家: 美国
• 起止时间: 2014-05-01 至 2025-04-30
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10620743
• 关键词: ATAC-seq; Aging; Bioinformatics; Cells; Collection; Communities; Comparative Study; Computers; Consultations; DNA; DNA Methylation; Data; Data Analyses; Data Storage and Retrieval; Dedications; Environment; Freezing; Gene Expression Profiling; Genome; Genomics; Geographic Locations; Goals; Hyaluronan; Infrastructure; Knowledge; Laboratories; Longevity; Maintenance; Malignant Neoplasms; Mediating; Methylation; Modeling; Mole Rats; Molecular; Mus; Mutation; Online Systems; Pathway interactions; Phenotype; Phylogenetic Analysis; Privatization; Process; Program Research Project Grants; Proteome; Rattus; Research; Research Personnel; Research Project Grants; Resistance; Resources; Rodent; Role; Services; Signal Transduction; Speed; Statistical Data Interpretation; System; Technology; Tissues; Tumor Suppression; Whole Organism; Work; comparative; comparative genomics; computerized data processing; data access; data integration; data portal; data sharing; data standards; data submission; data warehouse; design; epigenome; genome analysis; genome annotation; genomic data; methylome; methylomics; programs; synergism; tool; transcriptomics; user-friendly; virtual machine; web page; web server; web site; whole genome

SUMMARY: In this Program Project, the established bioinformatics core (Core C) will continue to provide computational support. Core C will help process and analyze the large amount of data that will be generated by the four projects. We propose a comparative study of genome maintenance and tumor suppression in relation to aging in rodents. While it has long been observed that rodents differ up to 10-fold in their lifespans, the mechanisms behind this difference remain unclear. Lack of this information is an important problem, because, without this knowledge, acquiring the ability to modulate aging on the whole organism level is highly unlikely. Our long-term goal is to understand the mechanisms that determine longevity. The overall objective of the bioinformatics core is to provide computational support and service to the project investigators – namely, both to work with each project to handle the data generated therein and to integrate data from all projects to achieve the aims of the program project grant as a whole. The central hypothesis of this Program Project is that long- lived rodents have evolved specific molecular mechanisms that mediate their longevity. This hypothesis has been formulated on the basis of preliminary data produced in the applicants' laboratories. The rationale for a dedicated bioinformatics core is that a consolidated facility is needed to manage the large amount of data on the whole genome level generated by each of the four highly integrated projects of this program project. This bioinformatics core will achieve two specific aims: 1) To further develop and maintain the PPG website and to develop a high-speed data portal for internal and public data sharing; 2) To assist the four research projects with data processing and analysis and develop new, dedicated tools to be used by PPG investigators. The function of the bioinformatics core is significant, because it will be set up to meet the challenge posed by the high volume of data that needs to be generated, examined at multiple levels by a variety of approaches, integrated to develop the models of lifespan control, and shared among project investigators.

摘要：在本计划项目中，已建立的生物信息学核心(核心C)将继续提供 计算支持。核心C将帮助处理和分析将由 四个项目。我们建议对基因组维持和肿瘤抑制之间的关系进行比较研究。 到啮齿动物的衰老。虽然长期以来人们观察到啮齿动物的寿命相差10倍，但 这种差异背后的机制尚不清楚。缺乏这些信息是一个重要的问题，因为， 如果没有这些知识，获得在整个生物体水平上调节衰老的能力是非常不可能的。 我们的长期目标是了解决定长寿的机制。《公约》的总体目标 生物信息学的核心是为项目调查人员提供计算支持和服务-即既 与每个项目合作，处理其中产生的数据，并整合所有项目的数据，以实现 计划项目资助的目标是作为一个整体。该计划项目的中心假设是，长期- 活着的啮齿动物进化出了特定的分子机制，调节了它们的寿命。这一假设已经 是根据申请者实验室提供的初步数据制定的。的基本原理是 专门的生物信息学核心是需要一个整合的设施来管理 这个计划项目的四个高度整合的项目中的每一个产生的全基因组水平。这 生物信息学核心将实现两个具体目标：1)进一步开发和维护PPG网站并 开发内部和公共数据共享的高速数据门户；2)协助四个研究项目 负责数据处理和分析，并开发供PPG调查人员使用的新的专用工具。这个 生物信息学核心的功能是重要的，因为它的建立将应对 需要生成的大量数据，需要通过各种方法在多个级别上进行检查， 集成以开发寿命控制模型，并在项目调查人员之间共享。