A Quality Assurance, Coordination and Analysis Center for HMP

HMP 质量保证、协调和分析中心

• 批准号: 8144951
• 负责人: Owen R White
• 金额: $ 192.44万
• 依托单位: UNIVERSITY OF MARYLAND BALTIMORE
• 依托单位国家: 美国
• 财政年份: 2008
• 资助国家: 美国
• 起止时间: 2008-09-26 至 2013-07-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/8144951
• 关键词: Baltimore; Biochemistry; Cataloging; Catalogs; Chemistry; Collaborations; Colorado; Communities; Community Outreach; Complex; Computer Analysis; Controlled Vocabulary; Data; Data Analyses; Databases; Development; Discipline; Disease Progression; Documentation; Educational workshop; Elements; Ensure; Feedback; Genome; Health; Human; Human Development; Human Microbiome; Human body; Immunity; Institutes; International; Internet; Joints; Juglans; Laboratories; Lead; Light; Link; Maryland; Measurement; Metadata; Metagenomics; Modeling; Monitor; Online Systems; Physiology; Procedures; Proteins; Quality Control; Recording of previous events; Research; Research Infrastructure; Resource Development; Resources; Sampling; Science; Services; Site; Support System; Surveys; System; Systems Analysis; Techniques; Time; Training; United States National Institutes of Health; Universities; base; community living; data exchange; data integration; data management; data reduction; design; experience; gene function; genome sequencing; interest; medical schools; member; metagenomic sequencing; microbial community; microbiome; microorganism; nutrition; online tutorial; open source; programs; quality assurance; success; symposium; tool

DESCRIPTION (provided by applicant): The human species is dependent for its survival upon the activities of billions of microorganisms that inhabit multiple environmental niches within and on the human body. The Human Microbiome Project (HMP) is an NIH Roadmap program designed to collect unprecedented amounts of data about the complexity of human microbial communities. The data will be generated by multiple HMP sequencing centers. To ensure that the data is maximally useful, a Data Analysis and Coordination Center (DACC) will be formed. This task will be accomplished via a multi-instiutional collaboration between five research groups with a history of close interactions, and extensive experience in a range of disciplines relevant to this project. The leaders of the five groups are: (i) Owen White, Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD; (ii) Victor Markowitz, Lawrence Berkeley National Lab, Berkeley, CA; (iii) Nikos Kyrpides, DOE-Joint Genome Institute (JGI) Walnut Creek, CA; (iv) Rob Knight, Department of Chemistry and Biochemistry, University of Colorado, Boulder CO; (v) Gary Anderson, Lawrence Berkeley National Laboratory, Berkeley, CA. Construction of the DACC will be accomplished through these four specific aims: 1. Creation of a Human Microbiome Data Store (HMDS) which will contain all data collected from the HMP centers organized through standardized formats, controlled vocabularies, a Human Microbiome Project Catalog (HMPC) tracking system, and links to Standard Operating Procedures (SOPs). 2. Development of a Comprehensive Computational Analysis Pipeline which will consist of an initial core set of elements and will be expanded over time as new tools useful to metagenomic anlaysis are developed either at the DACC or elsewhere. 3. Development of a Data Integration and Analysis System (DAIS) to support Web-Based Analysis and which will employ numerous data reduction and integration systems as well as numerouse data exploration tools that will be based on similar existing resources such as those found in IMG and IMG/M. 4. Engage in community outreach and training via surveys of target user groups, workshops at relevant conferences, onsite training courses, and online tutorials and seminars. PUBLIC HEALTH RELEVANCE: The information generated from the HMP project will shed light on the complex communities that inhabit the human host. The importance of this cannot be overemphasized given the growing evidence of microbiotic influence upon human development, physiology, disease progression, immunity, and nutrition. The success of the HMP depends on the DACC to provide the specialized data management and analysis infrastructure which will facilitate discoveries about the microbiome that will lead to improvements in human health.

描述（由申请人提供）：人类的生存依赖于数十亿微生物的活动，这些微生物栖息在人体内部和人体表面的多个环境生态位中。人类微生物组项目 (HMP) 是 NIH 路线图计划，旨在收集有关人类微生物群落复杂性的前所未有的大量数据。数据将由多个 HMP 测序中心生成。为了确保数据发挥最大作用，将成立数据分析和协调中心（DACC）。这项任务将通过五个研究小组之间的多机构合作来完成，这些研究小组有着密切的互动历史，并且在与该项目相关的一系列学科中拥有丰富的经验。这五个小组的领导者是： (i) Owen White，马里兰大学医学院基因组科学研究所，巴尔的摩，马里兰州； (ii) Victor Markowitz，劳伦斯伯克利国家实验室，加利福尼亚州伯克利； (iii) Nikos Kyrpides，美国能源部联合基因组研究所 (JGI)，加州核桃溪； (iv) Rob Knight，科罗拉多大学博尔德分校化学与生物化学系； (v) 加里·安德森 (Gary Anderson)，劳伦斯伯克利国家实验室，加利福尼亚州伯克利。 DACC 的建设将通过以下四个具体目标来完成： 1. 创建人类微生物组数据存储 (HMDS)，其中包含从 HMP 中心收集的所有数据，并通过标准化格式、受控词汇表、人类微生物组项目目录 (HMPC) 进行组织）跟踪系统，以及标准操作程序（SOP）的链接。 2. 开发综合计算分析管道，该管道将包含一组初始核心元素，并将随着在 DACC 或其他地方开发出对宏基因组分析有用的新工具而随着时间的推移而扩展。 3. 开发数据集成和分析系统（DAIS）以支持基于网络的分析，该系统将采用大量数据缩减和集成系统以及大量数据探索工具，这些工具将基于类似的现有资源（例如 IMG 中的资源）和IMG/M。 4. 通过目标用户群体调查、相关会议研讨会、现场培训课程、在线教程和研讨会等方式参与社区外展和培训。公共卫生相关性：HMP 项目生成的信息将揭示人类宿主的复杂社区。鉴于越来越多的证据表明微生物对人类发育、生理、疾病进展、免疫和营养的影响，这一点的重要性怎么强调都不为过。 HMP 的成功取决于 DACC 提供专门的数据管理和分析基础设施，这将有助于发现微生物组，从而改善人类健康。