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Genomics Core

基因组学核心

基本信息

批准号：
10475006
负责人：
Stephen J Salipante
金额：
$ 19.1万
依托单位：
SEATTLE CHILDREN'S HOSPITAL
依托单位国家：
美国
项目类别：
财政年份：
2010
资助国家：
美国
起止时间：
2010-07-06 至 2025-05-31
项目状态：
未结题

来源：
https://reporter.nih.gov/project-details/10475006
关键词：
Area Automobile Driving Bacteria Cells Computer Analysis Computer software Consultations Cystic Fibrosis Cystic Fibrosis Transmembrane Conductance Regulator Data Data Analyses Disease Escherichia coli Experimental Designs Functional disorder Funding Gastrointestinal tract structure Gene Expression Gene Expression Profile Gene Expression Profiling Generations Genetic Genomics Grant Health Human Human Resources Immune response Inflammation Laboratories Longevity Metabolic Metabolism Metagenomics Methodology Methods Microbe Microbial Genetics Microbial Physiology Microbiology Molecular Patients Peer Review Performance Physiology Play Production Publications Quantitative Reverse Transcriptase PCR Real-Time Systems Research Research Personnel Resources Respiratory System Ribosomal RNA Role Services Signal Transduction System Technical Expertise Techniques Technology Tissues Training Transcript Translational Research Universities Washington Work bacterial genome sequencing base computer infrastructure computing resources cost cystic fibrosis patients cystic fibrosis related diabetes data management data quality data sharing digital genome-wide gut dysbiosis gut microbes gut microbiome gut microbiota host-microbe interactions innovation innovative technologies instrument instrumentation lung microbiome member microbial community microbiome microbiome research new technology next generation sequencing novel novel sequencing technology pathogen tool transcriptome sequencing transposon sequencing

项目摘要

PROJECT SUMMARY/ABSTRACT The purpose of the Genomics Core is to provide instrumentation, computational infrastructure, technical and analytic expertise, and guidance in order to broadly enable and to enhance the use of genomic analysis in Cystic Fibrosis (CF) research. Among other areas of research focus, the Genomics Core places a special emphasis in understanding host-microbe interactions in individuals with CF. The Aims of the Core are to: 1) Provide sequencing and computational resources to study microbial communities in the CF gut, 2) Provide cutting-edge sequencing and computational resources that advance research on pathogens associated with CF disease states, 3) Provide advanced services to understand gene expression and molecular physiology of human cells that are relevant to CF disease states, and 4) Develop novel technologies for the genome-scale analysis of CF microbiology. These aims will be fulfilled by providing UW CF researchers with consultative, production, and analytical services relevant to the following domains: i. Consultation on genomic methods and experimental design. ii. Data Analysis, Data Management, and Data Sharing Services. iii. Bacterial whole genome sequencing. iv. Metagenomic and 16S rRNA Microbiome data generation and Analysis. v. Transcriptome sequencing (RNA-Seq) and targeted gene expression analysis (qRT-PCR). vi. Gut microbe quantitation by Digital Droplet PCR (dPCR). vii. New sequencing technology innovation. In addition to defining the microbiome of the gut at various timepoints and in various disease states of individuals with CF, the Core will play a primary role in driving projects to define how the microbiomes of the gastrointestinal (GI) and respiratory tracts change across the full lifespan of patients with CF, and to understand how the administration of highly effective CFTR modulators changes the composition and metabolic functions of the microbiome and its interface with host cells.

项目概要/摘要基因组核心的目的是提供仪器、计算基础设施、技术和分析专业知识和指导，以广泛实现和加强 Cystic 中基因组分析的使用纤维化（CF）研究。在其他研究重点领域中，基因组学核心特别强调了解 CF 患者宿主与微生物之间的相互作用。核心的目标是： 1) 提供用于研究 CF 肠道微生物群落的测序和计算资源，2) 提供尖端测序和计算资源可推进相关病原体的研究患有 CF 疾病状态，3) 提供先进的服务来了解基因表达和分子与 CF 疾病状态相关的人体细胞生理学，以及 4) 开发新技术 CF 微生物学的基因组规模分析。这些目标将通过为 UW CF 研究人员提供咨询、生产和分析来实现与以下领域相关的服务：我。基因组方法和实验设计咨询。二.数据分析、数据管理和数据共享服务。三.细菌全基因组测序。四.宏基因组和 16S rRNA 微生物组数据生成和分析。 v. 转录组测序 (RNA-Seq) 和靶向基因表达分析 (qRT-PCR)。六.通过数字微滴 PCR (dPCR) 进行肠道微生物定量。七.新测序技术创新。除了定义不同时间点和不同疾病状态下的肠道微生物组外，对于患有 CF 的个体，核心将在推动项目中发挥主要作用，以定义 CF 的微生物组如何胃肠道 (GI) 和呼吸道在 CF 患者的整个生命周期中发生变化，并了解施用高效 CFTR 调节剂如何改变细胞的组成和代谢功能微生物组及其与宿主细胞的界面。