Data Core

这项提议旨在实现关于疼痛相关基因和细胞类型的“分子百科全书”的愿景。 人背根神经节(HDRG)、周围神经和脊髓。任务是建立数据 基础设施和提供计算研究支持，这将是我们实现我们的中心 研究目标，并有效地使我们的数据可供我们的所有核心、其他精密中心和 更广泛的社区。这将为不同类型的研究人员的发现提供便利。第一个目标将是 核心以提供用于创建和管理原始数据的标准化工作流(包括排序， 组织成像和功能数据集)以及相关联的元数据和经处理的数据。我们会工作的 与组织采购和处理核心密切合作，维护记录和未确认的元数据 收集的组织和将产生的数据。第二个目标是创建标准化的工作流程 以及处理散装、单细胞/核和空间rna-seq(以及相关的核糖体足迹)的管道 和ATAC-seq)将执行质量控制(遵循ENCODE和GTEx标准)，识别不同的小区 基于临床表型和人口学的类型、它们的基因标记和差异表达基因 队列(来自人类背根节、周围神经和脊髓)。最后，核心将开发算法 (以软件工具和脚本的形式提供)，用于从不同的 与每个研究项目相结合的数据集，以满足这一赠款的科学里程碑。我们会 还可以开发工具来分析我们研究项目中的多个化验数据，以及其他精确的 以综合的方式居中。在这一核心开展的工作将使我们能够实现以下拟议目标 这个中心并充分描述了跨越不同组织的外周和脊椎疼痛路径，慢性疼痛 条件、年龄和性别。我们的影响还将超出我们的中心，因为我们计划使我们的数据和管道 其他研究人员可以访问，促进了其他数据集的协作和集成。

This proposal aims to realize the vision of a “molecular encyclopedia” of pain-associated genes and cell types in the human dorsal root ganglia (hDRG), peripheral nerve, and spinal cord. The mission is to build data infrastructure and provide computational research support that will be needed for us to achieve our Center’s research goals and to effectively make our data accessible to all our cores, other PRECISE Centers and the broader community. This will facilitate discovery for diverse types of researchers. The first aim will be for the Core to provide standardized workflows for the creation and management of the raw data (including sequencing, tissue imaging, and functional datasets), along with associated metadata, and processed data. We will work closely with the Tissue Procurement and Processing Core to maintain records and de-identified metadata around the tissues collected and the data that will be generated. The second aim will be to create standardized workflows and pipelines to process bulk, single-cell/nucleus, and spatial RNA-seq (and associated ribosome footprinting and ATAC-seq) that will perform quality control (following ENCODE and GTEx standards), identify different cell types, their gene markers, and differentially expressed genes for clinical phenotype and demographics-based cohorts (from human DRGs, peripheral nerves, and spinal cords). Finally, the Core will develop algorithms (provided as software tools and scripts) to retrieve specific information and test specific hypotheses from different datasets in conjunction with each research project and to meet the scientific milestones of this grant. We will also develop tools to analyze data from multiple assays in our Research Projects, as well as from other PRECISE Centers in an integrative fashion. The work conducted in this Core will allow us to meet the proposed goals of this Center and fully characterize peripheral and spinal pain pathways across different tissues, chronic pain conditions, age, and sex. Our impact will also go beyond our Center as we plan to make our data and pipelines accessible to other researchers, facilitating collaborations, and integration of other datasets.