Core B: Translational, Cellular and Molecular Analysis

核心 B：转化、细胞和分子分析

基本信息

批准号：
10715766
负责人：
MANUEL R AMIEVA
金额：
$ 43.49万
依托单位：
STANFORD UNIVERSITY
依托单位国家：
美国
项目类别：
财政年份：
2023
资助国家：
美国
起止时间：
2023-09-20 至 2028-08-31
项目状态：
未结题

来源：
https://reporter.nih.gov/project-details/10715766
关键词：
16S ribosomal RNA sequencing Achievement Antibodies Biological Assay Biology Biometry Biopsy Cancer Detection Cell physiology Cells Cellular Assay Chromatin Clinical Trials Confocal Microscopy DNA sequencing Data Data Analyses Data Set Detection Ensure Epigenetic Process Experimental Models Future Gastric Tissue Generations Genetic Genomic Library Genomics Goals Helicobacter pylori Image Imaging Techniques Immunohistochemistry Individual Laboratories Leadership Learning Libraries Malignant Neoplasms Management Information Systems Metadata Methods Molecular Molecular Analysis Molecular Genetics Multiomic Data Organoids Pathologic Precancerous Conditions Preparation Process Production Program Research Project Grants Protocols documentation Quality Control Recording of previous events Reproducibility Research Research Personnel Resources Sampling Sampling Studies Sequence Read Archive Services Stains Standardization Stomach Structure System Techniques Technology Tissue Sample Tissues Transposase United States National Institutes of Health Work automated analysis cellular imaging cohort data management data repository database of Genotypes and Phenotypes experience experimental analysis follow-up gastric organoids genetic profiling genomic data high risk human tissue image archival system imaging study malignant stomach neoplasm microscopic imaging next generation sequencing pathology imaging premalignant programs risk stratification single-cell RNA sequencing tissue culture tissue processing transcriptome sequencing transcriptomics translational study wasting

项目摘要

ABSTRACT – CELLULAR IMAGING AND GENOMICS CORE B Core B, the Cellular Genomics and Imaging Core (CGI), will provide centralized experimental processing services and primary data analysis for the Program Project Grant (PPG). The interactions between Projects 1, 2 and 3 primarily involve shared biospecimens and data; therefore, the PPG relies on the CGI to coordinate: (1) Experimental and translational sample management. (2) Cellular genomics that includes RNA-seq, single cell genomics and spatial transcriptomics. (3) Imaging studies for cellular characterization of primary tissue cultures. (4) Sample, molecular and genomic data management. The CGI core enables the PPG to leverage the combined expertise of molecular technologists, cellular biologists, imaging experts and informaticians to streamline data production. Biospecimens of human tissue biopsies and organoids will be tracked in a laboratory information management system (LIMS). These samples will be processed using standard operating protocols optimized by the CGI to facilitate reproducibility and consistency across all projects. These protocols will cover confocal microscopy imaging, RNA-seq, targeted DNA sequencing, spatial transcriptomics and single cell RNA sequencing. The CGI will produce a comprehensive landscape of the gastric microenvironment across a range of precancerous conditions and work in tandem with Core C for data analysis to further the PPG overall aims. The molecular, genomic and epigenetic characterization will allow investigators to conduct numerous studies on the drivers of gastric cancer and hypothesize methods for precision cancer interception.

摘要 - 细胞成像和基因组学核心B 核心B（细胞基因组学和成像核心（CGI））将提供集中的实验处理计划项目赠款（PPG）的服务和主要数据分析。项目1、2之间的互动 3主要涉及共享的生物测量和数据；因此，PPG依靠CGI进行协调：（1）实验和翻译样品管理。（2）包括RNA-SEQ，单细胞基因组学和空间转录组学的细胞基因组学。（3）用于原代组织培养物细胞表征的成像研究。（4）样品，分子和基因组数据管理。 CGI核心使PPG能够利用分子技术的综合专业知识，细胞生物学家，成像专家和信息能源者简化数据生产。人体组织的生物测量活检和器官将在实验室信息管理系统（LIMS）中进行跟踪。这些样本将使用CGI优化的标准操作协议来处理，以促进可重复性和所有项目的一致性。这些协议将涵盖针对性的共聚焦显微镜成像RNA-Seq DNA测序，空间转录组和单细胞RNA测序。 CGI将产生一个在一系列癌前条件和工作中，胃微环境的全面景观与核心C进行数据分析，以进一步促进PPG总体目标。分子，基因组和表观遗传学表征将允许研究人员对胃癌驱动因素进行大量研究和假设的方法用于精确的癌症拦截。