Bioinformatics Core

生物信息学核心

• 批准号: 10241904
• 负责人: Gregory James Dick
• 金额: $ 19.68万
• 依托单位: UNIVERSITY OF MICHIGAN AT ANN ARBOR
• 依托单位国家: 美国
• 财政年份: 2020
• 资助国家: 美国
• 起止时间: 2020-09-01 至 2025-05-31
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10241904
• 关键词: Address; Allogenic; Bile Acids; Bioinformatics; Butyrates; Cells; Cellular Metabolic Process; Clinical Research; Clinical Trials; Communication; Complex; DNA; DNA Sequence; DNA sequencing; Data; Data Analyses; Data Set; Databases; Development; Diet; Dietary Intervention; Emerging Technologies; Ensure; Fostering; Genomics; Goals; Health; Hematological Disease; Hematopoietic Stem Cell Transplantation; Human; Immune; Immune response; Individual; Laboratories; Life; Link; Maintenance; Metabolism; Metadata; Methods; MicroRNAs; Mitochondrial DNA; Modeling; Mus; Nature; Nuclear; Oral Administration; Outcome; Patients; Plasma; Postdoctoral Fellow; Potato; RNA; Research; Research Personnel; Research Project Grants; Research Support; Resistance; Science; Scientist; Severities; Shapes; Shotguns; Source; Starch; Statistical Data Interpretation; Students; Training; Volatile Fatty Acids; Work; analysis pipeline; bioinformatics pipeline; bioinformatics tool; data streams; disorder prevention; diverse data; experimental study; flexibility; gastrointestinal; genome sequencing; graft vs host disease; heterogenous data; intestinal epithelium; metabolome; metabolomics; microbial; microbiome; microbiome composition; mouse model; rRNA Genes; student training; tool; transcriptome sequencing; transcriptomics; user-friendly

PROJECT SUMMARY/ABSTRACT – CORE D The purpose of the Bioinformatics Core is to support the research projects in the analysis, management, and synthesis of large scale and heterogeneous datasets. Data will come from a variety of sources including microbiome amplicon and genome sequencing, plasma RNAseq, metabolomics, and from individuals of mice and patients in clinical trials. By centralizing the development, maintenance, and implementation of bioinformatics tools, and providing an efficient framework for synthesizing data, this core will provide state-of-the-art bioinformatics capabilities that are responsive and tailored to user’s needs and ensure data compatibility and comparability within and across projects. The Bioinformatics Core has the following specific aims, each involving direct interactions with the research projects and other cores: (1) Develop, maintain, and implement bioinformatic pipelines for analysis of genomic and transcriptomic data from microbiomes and their hosts. This aim is crucial for supporting the research project aims that are focused on understanding how changes in the microbiome composition and metabolism are linked to metabolites, immune responses, and health outcomes. Bioinformatics Core staff and students will work directly with students, postdocs, and staff from each of the research projects (see Aim 2) to understand their scientific goals and develop bioinformatics solutions. (2) Train scientists in bioinformatics and foster communication between scientists and bioinformaticians. Bioinformatics staff and students will train students, postdocs, and staff from each of the research projects in both the conceptual understanding the technical implementation of the various tools. (3) Synthesize the diverse data streams with a database that is flexible for adaptation and enables user-friendly data queries and modeling to address research questions and aims of the projects. This specific aim addresses the challenge of analyzing and synthesizing enormous quantities of data that is highly complex and inter- connected, diverse in form, and multi-dimensional. This database will enable researchers to efficiently interrogate the data and export it into various formats for downstream purposes. The Bioinformatics Core will be directed by Dr. Gregory Dick.

项目摘要/摘要-核心D 生物信息学核心的目的是支持研究项目在分析、管理、 以及大规模和异质数据集的合成。数据将来自各种来源 包括微生物组扩增和基因组测序，血浆RNAseq，代谢组学，以及来自 临床试验中的小鼠个体和患者个体。通过集中开发、维护和 实施生物信息学工具，并提供一个有效的数据合成框架，这 CORE将提供最先进的生物信息学能力，这些能力是根据用户的需求进行响应和定制的 需要并确保项目内和项目间的数据兼容性和可比性。生物信息学 CORE有以下具体目标，每个目标都涉及与研究项目和 其他核心：(1)开发、维护和实施生物信息学管道，用于分析基因组和 微生物组及其宿主的转录组数据。这个目标对于支持这项研究至关重要。 该项目的目标是了解微生物组的组成和 新陈代谢与代谢产物、免疫反应和健康结果有关。生物信息学核心员工 学生将直接与每个研究项目的学生、博士后和工作人员合作(参见 目的2)了解他们的科学目标并开发生物信息学解决方案。(2)培养科研人员 生物信息学，促进科学家和生物信息学家之间的交流。生物信息学工作人员 学生将在两个研究项目中培训学生、博士后和工作人员 从概念上理解各种工具的技术实施。(3)综合多样 具有数据库的数据流，该数据库可灵活调整并支持用户友好的数据查询和 建模以解决研究问题和项目的目标。这一具体目标解决了 分析和综合高度复杂且相互关联的海量数据的挑战 连通、形式多样、多维。该数据库将使研究人员能够高效地 询问数据并将其导出为各种格式以用于后续目的。生物信息学的核心 将由格雷戈里·迪克博士执导。