WashU-VAI Somatic Mosaicism across Human Tissues (SMaHT) Program Genome Characterization Center

WashU-VAI 人体组织体细胞嵌合 (SMaHT) 计划基因组表征中心

• 批准号: 10884711
• 负责人: Robert Scott Fulton
• 金额: $ 15.47万
• 依托单位: WASHINGTON UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2023
• 资助国家: 美国
• 起止时间: 2023-05-01 至 2028-04-30
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10884711
• 关键词: Affect; Autopsy; Bioinformatics; Biological; Biological Assay; Biological Process; Biology; Cataloging; Catalogs; Collaborations; Collection; DNA Transposable Elements; DNA sequencing; Data; Data Analyses; Disease; Elements; Genetic Transcription; Genome; Genome Data Analysis Network; Genomic DNA; Genomics; Goals; Health; Human; Information Systems; Longevity; Mediating; Modernization; Mosaicism; Nucleosomes; Phenotype; Production; Recommendation; Research; Sampling; System; Technology; The Cancer Genome Atlas; Time; Tissue Procurements; Tissues; Toxicant exposure; Variant; Work; bioinformatics tool; community engagement; computerized data processing; data infrastructure; data integration; data management; data quality; data visualization; design; epigenomics; experience; flexibility; genome resource; genomic data; genomic variation; human pangenome; human tissue; improved; member; programs; quality assurance; response; scientific computing; single cell sequencing; tool development; transcriptome sequencing; transposon/insertion element

PROJECT SUMMARY The Somatic Mosaicism across Human Tissues (SMaHT) Network aims to propel discovery of new biological processes in human health and disease that are mediated by genomic variation in somatic tissues. We propose to establish the WashU-VAI Somatic Mosaicism across Human Tissues (SMaHT) Program Genome Characterization Center (SMaHT-GCC). A fundamental goal of our proposed GCC is to generate high throughput, high quality, and high consistency genomic DNA and RNA sequencing data, and to construct a comprehensive catalogue of the human somatic variation together with other members of the Network. First, we will establish and manage a collaborative, efficient, transparent, and flexible GCC as an integral component of the SMaHT Network. We will leverage our experience in participating and leading many past and current genomics consortia to design and implement our GCC. The GCC will manage center administration, maintain high quality, sustainable, and on-time data production, develop and implement data management plans, conduct data quality assurance and integrative data analysis, and fully engage with the entire SMaHT Network. Second, we will generate high quality, high throughput, comprehensive and sustainable genomics datasets for the characterization of human somatic mosaicism, using state-of-the-art technologies. We capitalize on our past experience in generating high quality sequencing-based genomic resources, to design and implement our data production plan. We recommend a collection of human tissue types, and will implement four core genomics assays to profile sample received from SMaHT Tissue Procurement Center. We aim to deliver high throughput, high quality, and high consistency genomic DNA and RNA sequencing data to the SMaHT Data Analysis Center. Third, we will develop and maintain a modern, efficient, scalable, and interactive data management and processing system that seamlessly interfaces with the SMaHT Data Analysis Center. We will leverage our experience in scientific computing, information technology system, large genomic data management and integration, and community engagement to design and implement our data management plan. We will build a streamlined, efficient data infrastructure to manage GCC data and collaborate with SMaHT DAC. Fourth, we will develop and implement data analysis and visualization solutions for the SMaHT-GCC data. We will leverage our extensive experience in genomic data analysis and integration, bioinformatics tool development as well as data visualization in the implementation of our data analysis and visualization plan. We will also bring in unique expertise in analyzing transposable elements and epigenomics data. We will contribute to the Network-wide data analysis, and facilitate the characterization of a full spectrum of the human somatic mosaicism.

项目摘要 跨人类组织的体细胞嵌合体（SMaHT）网络旨在推动发现新的 在人类健康和疾病的生物过程中，由体细胞组织中的基因组变异介导。 我们建议建立跨人类组织的WashU-VAI体细胞嵌合体（SMaHT）计划基因组 表征中心（SMaHT-GCC）。我们提出的GCC的基本目标是产生高吞吐量， 高质量和高一致性的基因组DNA和RNA测序数据，并构建一个全面的 与该网络的其他成员一起编制人体变异的目录。首先，我们将建立 并管理一个协作、高效、透明和灵活的海湾合作委员会，作为SMaHT的一个组成部分 网络我们将利用我们参与和领导许多过去和现在的基因组学联盟的经验 来设计和实现我们的GCC。海湾合作委员会将管理中心的行政管理，保持高质量， 可持续和及时的数据生产，制定和实施数据管理计划，进行数据质量 确保和综合数据分析，并充分参与整个SMaHT网络。二是 生成高质量、高通量、全面和可持续的基因组学数据集， 人体嵌合体的表征，使用国家的最先进的技术。我们利用我们的过去 在生成高质量的基于测序的基因组资源方面的经验，以设计和实施我们的数据 生产计划。我们建议收集人体组织类型，并将实施四个核心基因组学 对从SMaHT组织采购中心收到的样本进行分析。我们的目标是提供高吞吐量， 高质量和高一致性的基因组DNA和RNA测序数据提供给SMaHT数据分析中心。 第三，我们将开发和维护一个现代化、高效、可扩展和交互式的数据管理系统， SMaHT数据处理系统与SMaHT数据分析中心无缝对接。我们将利用我们 在科学计算、信息技术系统、大型基因组数据管理和 整合和社区参与来设计和实施我们的数据管理计划。新的起点上建设更加富裕 简化、高效的数据基础设施，可管理GCC数据并与SMaHT DAC协作。四是 为SMaHT-GCC数据开发和实施数据分析和可视化解决方案。我们将利用我们 在基因组数据分析和整合，生物信息学工具开发以及数据 在我们的数据分析和可视化计划的实施过程中，我们还将带来独一无二的 在分析转座因子和表观基因组学数据方面的专业知识。我们将为全网数据做出贡献 分析，并促进表征的一个完整的频谱的人体镶嵌。