Functional Genomics & Microbiome Core

项目概要：功能基因组学和微生物组核心（生物医学研究核心） 德克萨斯医学中心消化疾病中心的功能基因组学和微生物组（FGM）核心 (DDC)支持DDC的使命，加强感染和损伤主题的研究计划 影响肠道和肝脏这一核心增强了中心的范围，以响应DDC用户的需求， 该中心致力于微生物组的重要性：胃肠和肝脏中的哺乳动物界面 生物学FGM核心致力于汇集微生物和哺乳动物生物学基础分子 消化系统疾病的机制。它通过基于大规模的多组学方法来实现这一目的， 大规模数据生成和深入分析微生物和哺乳动物细胞群体。 FGM核心是一个全面的资源，服务包括实验设计咨询， 标本处理、强大的数据生成和分析管道、生物信息学策略和生物统计学 支持.我们为研究人员创建了一个完全集成的基因组和多组学分析平台， DDC成员高度使用的消化系统疾病（62个正式成员使用中的25个，>680个服务请求， 并在本供资周期内出版了83份相关出版物）。 FGM核心为DDC成员提供仪器和专业知识，以促进微生物和哺乳动物 基因组学、转录组学、代谢组学和蛋白质分析应用于胃肠道疾病 以感染、损伤或代谢状态改变为特征。DDC成员的研究计划得到了培养 该核心能够将微生物组科学与哺乳动物生物学联系起来，并提供多层次的服务， 在基因和效应物（蛋白质和代谢物）的水平上。此核心使用工具和服务，例如高度 并行核酸测序，质谱引导的代谢组学和蛋白质组学，以及超级计算机- 指导生物信息学和分子建模。FGM核心作为一个平台， 通过研究哺乳动物和微生物的基因表达谱、细胞内 信号通路和细胞间通讯通道。 FGM Core提供高度创新的服务，既有机构共享，也有DDC成员专属。 核心为DDC成员（以补贴费率）利用资本密集型资源（主要是 在机构微生物组和哺乳动物功能基因组学设施内， 其目标1（阐明DD中的哺乳动物基因表达和表观基因组学）和目标2（产生功能性 使用宏基因组方法对微生物组/病毒组的见解）。液相色谱-质谱联用 基于光谱的代谢组学和蛋白质组学服务（目标3）与先进的生物信息学（目标4）相结合 仅为DDC成员运营。

PROJECT SUMMARY: Functional Genomics and Microbiome Core (Biomedical Research Core) The Functional Genomics and Microbiome (FGM) Core of the Texas Medical Center Digestive Disease Center (DDC) supports the DDC’s mission and enhances research programs in the theme of infection and injury affecting the intestine and liver. This core enhances the Center’s scope in response to DDC user demand and the center’s commitment to the importance of the microbiome:mammalian interface in gastrointestinal and liver biology. The FGM Core strives to bring together the microbial and mammalian biology underpinning molecular mechanisms of digestive diseases. It accomplishes this purpose via multi-omics approaches based on large- scale data generation and deep analytics of microbial and mammalian cell populations. The FGM Core is a comprehensive resource with services including consultation on experimental design and specimen processing, robust data generation and analysis pipelines, bioinformatics strategies, and biostatistical support. We have created a fully integrated genomic and multi-omic analysis platform for investigators studying digestive diseases that is highly used by DDC members (25 of 62 Full Member usage, >680 service requests, and 83 resulting publications during the present funding cycle). The FGM Core provides DDC members with instrumentation and expertise to facilitate microbial and mammalian genomics, transcriptomics, metabolomics, and protein analytics applied to gastrointestinal diseases characterized by infection, injury, or altered metabolic states. DDC members’ research programs are nurtured by this Core’s ability to bridge microbiome science and mammalian biology and to provide multi-tiered services at the levels of genes and effectors (proteins and metabolites). This Core uses tools and services, such as highly parallel nucleic acid sequencing, mass spectrometry-guided metabolomics and proteomics, and supercomputer- guided bioinformatics and molecular modeling. The FGM Core serves as a platform for gastrointestinal and hepatic systems biology by enabling studies of mammalian and microbial gene expression profiles, intracellular signaling pathways, and cell:cell communication channels. The FGM Core offers highly innovative services that are both institutionally shared and DDC member-exclusive. The Core leverages for DDC members (at subsidized rates) the capital-intensive resources (chiefly instrumentation) within the institutional microbiome and mammalian functional genomics facilities to accomplish its Aims 1 (to elucidate mammalian gene expression and epigenomics in DD) and Aim 2 (to generate functional insights into microbiome/virome using metagenomic approaches). The liquid chromatography-mass spectrometry-based metabolomic and proteomic services (Aim 3) coupled with advanced bioinformatics (Aim 4) are exclusively operated for DDC members.