Adding Rhesus Macaque to the Alliance

将恒河猴加入联盟

基本信息

批准号：
10831681
负责人：
CAROL J BULT
金额：
$ 81.08万
依托单位：
CALIFORNIA INSTITUTE OF TECHNOLOGY
依托单位国家：
美国
项目类别：
财政年份：
2019
资助国家：
美国
起止时间：
2019-09-18 至 2024-07-31
项目状态：
已结题

项目摘要

Summary We propose to incorporate the rhesus macaque (Macaca mulatta) genome into the Alliance of Genome Resources (Alliance). This one-year project would serve two main purposes. First, it will bring a non-human primate into the Alliance, which will deeply connect knowledge about this important research organism to other research organisms and provide useful features for the macaque research community. Second, it will provide preliminary results and a path forward for a robust knowledgebase project for other non-human primates to be associated with the Alliance. It will also serve as a proof of principle for the Alliance’s agility and scalability. In collaboration with an existing and already interested resource, mGAP (the Macaque Genotype and Phenotype Resource), we will systematically bring information about this macaque genome and genetics into the Alliance. Starting with existing macaque resources (e.g., mGAP for variants, phenotypes, and disease connections) as well as generic resources (NCBI for genome; GOC for Gene annotations; BioGrid/IMEX for molecular interactions; Reactome; OMIM). The Oregon National Primate Research Center (ONPRC) has been interested in joining the Alliance for five years, and we are now ready to engage fully. In particular, the Alliance is well on its way to having an extensible persistent store with a rich-data model handling variants, disease annotations; gene expression; GO annotations; interactions and so forth. We will populate these with macaque data over the year. As the macaque data are incorporated, we will provide for macaque the full suite of features available on the current Alliance site, and others as they become available. Specifically, we will provide a macaque landing page with community-specific content; a community forum; gene pages for all macaque genes; orthology calls for protein-coding genes; an interactive table of variants; disease annotations; a JBrowse2 instance that will visualize variants as well as gene structure models; automated descriptions of gene function that will head each gene page; table of Gene Ontology (GO) annotations; pathways from Reactome and GO-CAM; gene expression; and molecular interactions. Together this will provide a useful resource to the growing non-human primate genome biology community and its connection with a broader set of biomedical researchers.

概括我们建议将恒河猴（Macaca mulatta）基因组纳入联盟基因组资源（联盟）。这个为期一年的项目有两个主要目的。将非人类灵长类动物引入联盟，这将深入连接这方面的知识对其他研究生物体来说很重要的研究生物体，并为研究提供有用的特征其次，它将为猕猴研究界提供初步结果和前进道路。一个为其他非人类灵长类动物与联盟建立联系的强大知识库项目。它还将作为联盟协作灵活性和可扩展性的原则证明。与现有的和已经感兴趣的资源，mGAP（猕猴基因型和表型资源），我们将系统地将有关这只猕猴基因组和遗传学的信息引入从现有的猕猴资源（例如变异、表型和 mGAP）开始疾病联系）以及通用资源（NCBI 用于基因组；GOC 用于基因注释； BioGrid/IMEX 用于分子相互作用；OMIM；俄勒冈国家灵长类动物研究中心（ONPRC）五年来一直有兴趣加入该联盟，我们正在特别是，现在联盟已准备好全面参与，并正在努力实现可扩展的目标。具有处理变异、疾病基因表达的丰富数据模型的持久存储； GO 注释；交互等等，我们将用猕猴数据填充这些。随着猕猴数据的整合，我们将为猕猴提供全套功能。具体而言，我们将在当前联盟网站以及其他可用网站上提供。提供具有社区特定内容的猕猴登陆页面；所有猕猴基因的页面；直系同源需要蛋白质编码基因的交互式表；疾病注释；一个 JBrowse2 实例，可以可视化变异和基因结构模型；自动描述每个基因页面的基因功能；基因本体 (GO) 注释；Reactome 和 GO-CAM 基因表达途径；和分子相互作用，这将为不断增长的非人类提供有用的资源。灵长类基因组生物学界及其与更广泛的生物医学的联系研究人员。