A Comprehensive Functional Map of Human Protein-RNA Interactions

人类蛋白质-RNA 相互作用的综合功能图谱

• 批准号: 10087955
• 负责人: Brenton R. Graveley
• 金额: $ 75.66万
• 依托单位: UNIVERSITY OF CONNECTICUT SCH OF MED/DNT
• 依托单位国家: 美国
• 财政年份: 2018
• 资助国家: 美国
• 起止时间: 2018-02-05 至 2022-08-31
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10087955
• 关键词: Affinity; Antibodies; Binding; Cell Line; Cells; ChIP-seq; Clustered Regularly Interspaced Short Palindromic Repeats; Code; Communities; Data; Data Analyses; Data Set; Databases; Disease; Elements; Encyclopedias; Engineering; Epitopes; Genetic; Genomics; Goals; HepG2; Human; Human Cell Line; Image; K-562; Language; Maps; Modality; Online Systems; Output; Process; Production; Property; Proteins; RNA; RNA Binding; RNA Databases; RNA-Binding Proteins; RNA-Protein Interaction; Reagent; Reproducibility; Resources; Scientist; Training; data portal; epigenomics; genome editing; genomic locus; insight; portability; stable cell line; tool; transcriptome sequencing; transcriptomics; user-friendly; vector; web portal

RESOURCE PROJECT - PROJECT SUMMARY The overall goal of ENCORE (Encyclopedia of RNA Elements) is to provide protein-RNA interaction maps for 300 RBPs in 2 human cell lines, and associated localization, binding motif and functional datasets that aid in interpretation of these data and assigning functions to the bulk of these RBPs. The goal of this resource project is to generate and validate stable cell lines expressing epitope-tagged RNA binding proteins, perform primary and integrated analysis of the human RBP physical and functional interaction data, and to develop publicly- accessible transcriptomic, binding affinity and subcellular localization databases. These three goals are critical to maximizing the impact of this resource by providing not only valuable physical resources to the community (e.g. tagged cell lines) but also integrated analysis of the data to obtain as much insight as possible into the functional and binding properties of each RBP. More importantly, making this data as accessible as possible to a broad community of scientists will be achieved by making all data available at public data portals such as the ENCODE DCC, as well as via our own web portals that host the datasets in formats amenable for web-based queries and focused browsing. We will also conduct training sessions in the use of these tools. Finally, we will facilitate reproducible data analysis by making all code we develop available using common workflow language that can be used on any compute server and platform.

资源项目-项目摘要 ENCORE（Encyclopedia of RNA Elements）的总体目标是提供蛋白质-RNA相互作用图谱， 2种人类细胞系中的300个RBP，以及相关的定位、结合基序和功能数据集， 对这些数据进行解释，并为这些限制性商业惯例分配职能。这个资源项目的目标 是产生和验证表达表位标记的RNA结合蛋白的稳定细胞系， 和人体RBP物理和功能相互作用数据的综合分析，并公开开发- 可访问的转录组学、结合亲和力和亚细胞定位数据库。这三个目标至关重要 不仅为社区提供宝贵的物质资源， (e.g.标记的细胞系），但也整合了数据分析，以获得尽可能多的洞察力， 每个RBP的功能和结合特性。更重要的是，让这些数据尽可能地 通过在公共数据门户网站（如 ENCODE DCC，以及通过我们自己的门户网站，以适合基于网络的格式托管数据集 查询和集中浏览。我们还将举办使用这些工具的培训班。最后我们将 通过使用通用工作流语言使我们开发的所有代码可用，促进可重复的数据分析 可以在任何计算机服务器和平台上使用。