Adding Rhesus Macaque to the Alliance

摘要 我们建议将猕猴(Macaca Mulatta)的基因组整合到 基因组资源(联盟)。这个为期一年的项目将有两个主要目的。首先，它将 将非人类灵长类动物带入联盟，这将深入联系关于这一点的知识 重要的研究生物体和其他研究生物体，并为 猕猴研究社区。第二，它将提供初步成果和前进道路 为其他与联盟相关的非人类灵长类动物提供强大的知识库项目。 它还将作为联盟灵活性和可扩展性的原则证明。在协作中 与现有的和已经感兴趣的资源mGAP(猕猴基因和表型 资源)，我们将系统地将关于这种猕猴基因组和遗传学的信息带入 联盟。从现有的猕猴资源开始(例如，针对变体、表型和 疾病关联)以及通用资源(基因组的NCBI；基因注释的GOC； 用于分子相互作用的BioGrid/IMEX；反应组；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，我们正在 现在已经准备好全面投入。特别是，联盟正在朝着拥有一个可扩展的 使用处理变异、疾病注释、基因表达的丰富数据模型的持久存储； GO注释；交互等等。我们将在这些数据中填充猕猴数据 年。随着猕猴数据的加入，我们将为猕猴提供全套功能 在当前的联盟网站上提供，并在其他网站可用时提供。具体来说，我们将 提供包含社区特定内容的猕猴登录页面；社区论坛；基因 所有猕猴基因的页面；正词学要求编码蛋白质的基因；互动表 变体；疾病注释；将可视化变体和基因的JBrowse2实例 结构模型；基因功能的自动描述，将成为每个基因页面的标题；表格 基因本体论(GO)注释；来自反应组和GO-CAM的途径；基因表达； 和分子相互作用。总而言之，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群落及其与更广泛的生物医学体系的联系 研究人员。

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.