Microbiomics and Functional Genomics Core

总结 肠道、肝脏和其他部位的许多特化宿主细胞之间的复杂相互作用，多态性 多种易感基因及其相关的信号通路和功能，以及无数的微生物 和其他环境因素正在成为许多最重要的 消化系统疾病，例如炎症性肠病（IBD）和非酒精性脂肪肝 （NAFLD）。越来越明显的是，对参与者和互动的更全面的看法 是解开许多最令人困惑的消化系统疾病的关键。因此，描述和 定义多个宿主和微生物细胞及其基因表达应答越来越重要， 对消化系统疾病的研究至关重要。这些工具中最先进的是基于高- 通量测序，因为现在通常可以获得数亿个碱基对的序列 以适度的成本。下一代测序技术彻底改变了基础和转化研究 在过去的几年里，在医学上，在消化系统疾病的研究中，需求越来越大。 因此，我们设计了微生物和功能基因组学核心，以提供先进的 为中心成员提供微生物和基因组学服务，并提供基因组学方面的咨询和培训 技术，以提高成员在其研究中实施这些技术的能力。具体地说， 核心将：1）进行微生物组学和功能基因组学的测序分析; 2）进行 基于测序的分析的生物信息学分析; 3）在涉及微生物的研究中提供咨询和建议 和功能基因组学;以及4）提供经验证的实验方案和培训。核心利用 几个已建立的机构共享资源，包括微生物组创新中心， 加州大学圣地亚哥分校（UCSD），UCSD基因组医学研究所基因组中心， 以及加州大学圣地亚哥分校计算生物学和生物信息学中心。这种独特的组合和整合， 优秀的现有资源将确保中心成员能够获得尖端技术， 涉及微生物组学和功能基因组学的研究。核心将由国际公认的 微生物组学专家（Rob Knight博士）和功能基因组学专家（Christopher Glass博士），以及其他核心 工作人员在微生物组科学、分子遗传学、生物信息学和计算 生物学该中心制定了严格的质量控制和数据验证程序。在一起，这 基础设施和专业知识将使微生物和功能基因组学核心提供一系列 高质量和具有成本效益的微生物组学和功能基因组学服务，大大提高了 中心成员推进消化系统疾病研究。

Summary Complex interactions between numerous specialized host cells in gut, liver and other locations, polymorphisms of multiple susceptibility genes and their associated signaling pathways and functions, and a myriad of microbial and other environmental factors are emerging as central to the pathogenesis of many of the most important digestive diseases, as exemplified by inflammatory bowel disease (IBD) and non-alcoholic fatty liver disease (NAFLD). It is becomingly increasingly evident that more comprehensive views of the players and interactions are needed to unravel many of the most perplexing digestive diseases. Consequently, tools to characterize and define multiple host and microbial cells and their gene expression responses are increasingly important and essential for digestive diseases research. Most advanced among these tools are technologies based on high- throughput sequencing, as it is now routinely possible to obtain hundreds of millions of base pairs of sequence at modest costs. Next-generation sequencing technologies have revolutionized basic and translational research in medicine over the last several years, and are in increasing demand in digestive diseases research. Consequently, we have designed the Microbiomics and Functional Genomics Core to provide advanced microbiomics and genomics services to Center members, and offer consultation and training in genomics technologies to enhance the ability of members to implement these technologies in their research. Specifically, the Core will: 1) Conduct sequencing-based assays for microbiomics and functional genomics; 2) Perform bioinformatics analyses of sequencing-based assays; 3) Consult and advise in studies involving microbiomics and functional genomics; and 4) Provide validated experimental protocols and training. The Core leverages several established institutional shared resources, including the Center for Microbiome Innovation at the University of California, San Diego (UCSD), the Genomics Center of the Institute for Genomic Medicine at UCSD, and the UCSD Center for Computational Biology and Bioinformatics. This unique combination and integration of outstanding existing resources will ensure that Center members have access to cutting-edge technologies for studies involving microbiomics and functional genomics. The Core will be directed by internationally recognized experts in microbiomics (Dr. Rob Knight) and functional genomics (Dr. Christopher Glass), and other Core personnel are highly experienced in microbiome science, molecular genetics, bioinformatics and computational biology. The Core has established rigorous procedures for quality control and data validation. Together, this infrastructure and expertise will enable the Microbiomics and Functional Genomics Core to provide a range of high quality and cost-effective microbiomics and functional genomics services that greatly enhance the ability of Center members to advance digestive diseases research.