Immune Responses to Malaria, HIV and SARS-CoV-2 Infection and Immunization- Data Management and Analysis Core

对疟疾、HIV 和 SARS-CoV-2 感染的免疫反应和免疫 - 数据管理和分析核心

• 批准号: 10419587
• 负责人: Raphael Gottardo
• 金额: $ 37.9万
• 依托单位: SEATTLE CHILDREN'S HOSPITAL
• 依托单位国家: 美国
• 财政年份: 2017
• 资助国家: 美国
• 起止时间: 2017-07-19 至 2027-04-30
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10419587
• 关键词: AIDS Vaccines; Attention; Bioconductor; Biological; Biological Assay; Cells; Cellular Assay; Collaborations; Complex; Computer Analysis; Data; Data Analyses; Data Collection; Data Files; Data Management Resources; Data Set; Databases; Deposition; Ensure; Fostering; Grant; HIV; HIV Vaccine Trials Network; Human; Immune response; Immune system; Immunization; Immunologics; Immunology; Immunology procedure; Infrastructure; Linear Models; Malaria; Measures; Modeling; Noise; Process; Pythons; Quality Control; Reproducibility; Research; Research Design; Research Project Grants; Resources; SARS-CoV-2 infection; Sample Size; Scientist; Secure; Sensitivity and Specificity; Services; Signal Transduction; Standardization; Statistical Data Interpretation; System; Systems Analysis; Systems Biology; Technology; Testing; Time; Tissues; Vaccines; Work; bioinformatics tool; complex data; computerized data processing; computerized tools; data integration; data management; data quality; data resource; data sharing; data standards; data submission; design; diverse data; heterogenous data; high dimensionality; improved; insight; novel; open source tool; pathogen; programs; response; tool; vaccine discovery; web portal

Abstract Large-data management systems and computational analysis approaches to immunological research must be able to handle high-throughput, multiparametric assay technologies, which pose unique data management and analysis challenges. Building upon our past work in the Human Immunology Project Consortium (HIPC), including the ImmuneSpace HIPC web portal and data resource, this proposal aims to establish an infrastructure that will streamline data analysis and integration – across research centers and across assay types – across the different scientific projects of this proposal, thus helping achieve more meaningful biological insights into their motivating questions. Our Data Management and Analysis Core (DMAC) will provide data management and associated services required to support the scientific projects of this proposal in three ways. First, we will develop pipelines for importing, annotating, pre-processing, and standardizing immunological assay data to enable data analysis and for deposition into our data management system. These pipelines will utilize existing tools where appropriate; tools will be modified and/or new tools will be developed, when needed. In addition, we will strive to use collaborative, open-source tools. Second, utilizing these pipelines, we will develop a central data management system for data collection, storage, and sharing. The system will be built around the DataPackageR R package that we have developed, and will track data processing as a separate step from statistical analysis. Third, we will provide study design and statistical/computational support for the different research projects of this proposal. These efforts are particularly important for ensuring high sensitivity and specificity to detect e.g. vaccine-induced immune responses and for quantifying these responses with maximal accuracy, reproducibility, and signal-to-noise ratios. By achieving the aims of this grant, unprocessed raw data from diverse labs and immunological assay technologies will be able to be quality controlled, annotated in a standardized fashion, formatted for downstream analysis and modeling, and finally stored on a shared and highly secure infrastructure, providing a seamless and highly reproducible workflow that bolsters the quality of the scientific analyses.

摘要 免疫学研究的大数据管理系统和计算分析方法必须 能够处理高通量、多参数分析技术，这带来了独特的数据管理， 分析挑战。在我们过去在人类免疫学项目联盟（HIPC）的工作基础上， 包括ImmuneSpace HIPC门户网站和数据资源，该提案旨在建立一个 简化数据分析和集成的基础架构-跨研究中心和跨分析 类型-跨越本提案的不同科学项目，从而有助于实现更有意义的生物学 洞察他们的动机问题。我们的数据管理和分析核心（DMAC）将提供数据 管理和相关服务，以三种方式支持本提案的科学项目。 首先，我们将开发免疫学导入、注释、预处理和标准化的管道 分析数据，以便进行数据分析并存入我们的数据管理系统。这些管道将 酌情利用现有工具;在下列情况下，将修改工具和/或开发新工具： needed.此外，我们将努力使用协作、开源工具。第二，利用这些管道，我们 将开发一个中央数据管理系统，用于数据收集、存储和共享。该系统将 它围绕我们开发的DataPackageR R包构建，并将跟踪数据处理， 与统计分析分开。第三，我们将提供研究设计和统计/计算支持 这份提案的不同研究项目。这些努力对于确保高质量的 检测例如疫苗诱导的免疫应答和定量这些的灵敏度和特异性 具有最大准确度、再现性和信噪比的响应。通过实现这一目标， 当然，来自不同实验室和免疫测定技术的未经处理的原始数据将能够被质量控制。 以标准化的方式进行控制、注释、格式化以用于下游分析和建模， 存储在共享且高度安全的基础设施上，提供无缝且高度可复制的工作流程 从而提高科学分析的质量。