Penn TMC: Data Analysis Core

对大型公共资源生成项目的数据和流程进行适当的管理是至关重要的 为HuBMAP TMCs等项目的成功干杯。数据分析核心的目标是支持 美国宾夕法尼亚大学雌性多尺度分子图谱中心的资源生成操作 具有数据协调的生殖系统。我们将提供计算基础设施来处理所有 数据，实施质量控制程序，并启用数据来源。我们将发展 临床程序、分子程序和信息学的元数据和来源模型 程序。我们还将为所有过程开发质量控制方法，并实施自动化系统 QC检查。我们将处理所有主要数据，如测序和图像数据，并准备数据 用于向HuBMAP蜂箱群和其他公共储存库进行存放。我们还将提供以下分析 该中心包括多式联运一体化和空间一体化。我们将进行数据规范化， 批量校正、数据集之间和跨比例尺的对齐以及多模式的集成 数据类型。我们将开发一个女性生殖系统的3D数字模型，并使用该模型来 指导样品的空间索引，并使分子数据与其空间背景相一致。我们 将提供特定于该项目的额外分析，例如重建周期性的时间动力学。 最后，我们将与HIVE协调存储和传播数据、程序和分析结果， 和材料试剂。我们将与HuBMAP配置单元组合作，将数据转换和QC到 标准，并将数据存入财团。我们还将与 开发元数据标准、受控词汇表、本体和其他社区的联盟 标准。我们还将记录所有方案、试剂、组织生物库、程序和分析 具有数据模型的管道，并为宾夕法尼亚大学的所有相关信息提供公共数据库 中心。

The proper curation of data and processes for a large-scale public resource generation project is critical to the success of projects like the HuBMAP TMCs. The goal of the Data Analysis Core is to support the resource generation operations of the Penn Center for Multiscale Molecular Map of the Female Reproductive System with data coordination. We will provide computational infrastructure to process all data, implement Quality Control (QC) procedures, and enable data provenance. We will develop metadata and provenance models of the clinical procedures, molecular procedures, and informatics procedures. We will also develop QC methods for all processes and implement automatic systems for QC checks. We will process all primary data, such as sequencing and image data, and prepare the data for deposition to HuBMAP HIVE groups and other public repositories. We will also provide analyses for the Center, including multi-modal integration and spatial integration. We will carry out data normalization, batch correction, alignments between datasets and across scales, as well as integration of multi-modal data types. We will develop a 3D digital model of the female reproductive system and use the model to guide spatial indexing of the samples as well as to align the molecular data to their spatial contexts. We will provide additional analytics specific to the project such as reconstructing periodic temporal dynamics. Finally, we will coordinate with HIVE to deposit and disseminate data, programs and analysis outputs, and material reagents. We will work with the HuBMAP HIVE groups to transform and QC the data to the standards of the consortium and deposit the data with the consortium. We will also work with the consortium to develop metadata standards, controlled vocabularies, ontologies, and other community standards. We will also document all protocols, reagents, tissue biobanks, programs, and analysis pipelines with data models and provide a public database for all associated information of the Penn Center.