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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.

总结我们建议将恒河猴（Macaca mulatta）基因组纳入联盟， Genome Resources（Alliance）.这一为期一年的项目有两个主要目的。一是将一种非人类灵长类动物带入联盟，这将深刻地连接有关这一点的知识，重要的研究生物对其他研究生物，并提供有用的功能，猕猴研究社区第二，它将提供初步成果和前进道路，一个强大的知识库项目，让其他非人类灵长类动物与联盟建立联系。它还将作为联盟灵活性和可扩展性的原则证明。合作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纳入联盟。从现有的猕猴资源开始（例如，变体、表型和疾病联系）以及通用资源（NCBI用于基因组; GOC用于基因注释; 用于分子相互作用的BioGrid/IMEX; Reactome; OMIM）。俄勒冈州国家灵长类动物研究中心（ONPRC）五年来一直有兴趣加入联盟，我们是现在准备好全力投入特别是，联盟正在努力建立一个可扩展的持久性存储，具有丰富的数据模型，可处理变体、疾病注释、基因表达; GO注释;交互等等。我们将用猕猴数据填充这些数据，年由于猕猴数据被纳入，我们将为猕猴提供全套功能可在当前的联盟网站上获得，以及其他可用的网站。具体来说，我们将提供具有社区特定内容的Macaque登陆页面;社区论坛;基因网页的所有猕猴基因;正字法要求蛋白质编码基因;一个互动表变异;疾病注释;将变异和基因可视化的JBrowse 2实例结构模型;自动描述基因功能，将在每个基因页的顶部;表格基因本体（GO）注释;来自Reactome和GO-CAM的途径;基因表达; 和分子间的相互作用这将共同为日益增长的非人类提供有用的资源灵长类基因组生物学社区及其与更广泛的生物医学研究人员