Core B: Bioinformatics & Biostatistics Core

核心B：生物信息学

• 批准号: 10470927
• 负责人: S. Stephen Yi
• 金额: $ 29.47万
• 依托单位: UNIVERSITY OF TX MD ANDERSON CAN CTR
• 依托单位国家: 美国
• 财政年份: 2020
• 资助国家: 美国
• 起止时间: 2020-09-01 至 2025-08-31
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10470927
• 关键词: Adolescent; Adult; Antigen-Presenting Cells; Area; Bioinformatics; Biological; Biology; Biometry; Biostatistics Core; Cell Cycle; Cell Differentiation process; Cells; Characteristics; Collaborations; Data; Data Set; Data Storage and Retrieval; Development; Educational process of instructing; Environment; Gene Expression; Gene Expression Profile; Gene Expression Profiling; Genes; Genetic Transcription; Goals; Grant; Growth; Hematopoietic; Heterogeneity; High Performance Computing; Human; Individual; Informatics; Joints; Link; Maintenance; Malignant Neoplasms; Masks; Methods; Modeling; Molecular; Mus; Pathway interactions; Perinatal; Play; Population; Publications; Research; Research Project Grants; Research Support; Role; Sample Size; Secure; Services; Signal Transduction; Standardization; Statistical Methods; Stromal Cells; Systems Biology; Technology; Texas; Thymic epithelial cell; Thymocyte Selection; Thymus Gland; Universities; Work; austin; cell type; design; epithelial stem cell; experience; experimental study; fetal; genomic platform; human disease; medical schools; post-doctoral training; programs; service utilization; single-cell RNA sequencing; success; synergism; transcriptome sequencing

PROJECT SUMMARY Recent advances in single cell RNA-seq (scRNA-seq) technology have enabled quantification of underlying heterogeneity within cell populations through identifying gene expression signatures of individual cells to reveal transcriptionally distinct cellular subsets. In addition, scRNA-seq combined with appropriate bioinformatics analyses enable modeling of developmental lineage hierarchies and discovery of rare cell types that would be otherwise masked in bulk RNA-seq data. Comprehensive and systematic analysis of both scRNA-seq and bulk RNA-seq data is critical to the success of the Research Projects (RPs) in this Program. The Bioinformatics and Biostatistics Core (Core B) has been designed to meet this need. The Core B leader (Dr. Stephen Yi) has over 10 years of experience in research and teaching in bioinformatics and biostatistics, especially in gene expression analysis, resulting in more than 30 high-impact publications in the field. Core B services will be used by all three RPs for bioinformatics analysis of scRNA-seq and bulk RNA-seq data on mouse and human (with Core C) TECs, stromal cells, and HAPCs. The Core will also provide biostatistics support for all experiments in the Program. The analytical approaches provided by Core B are essential to the goals of all RPs. The core will provide services in three Tasks for the RPs as follows: Task 1. Data storage and maintenance for all Research Projects (RP) and Cores; Task 2. Perform gene expression analyses on scRNA-seq and bulk RNA-seq data; Task 3. Provide general biostatistics support for data generated from RP 1, 2, 3 and with Core C. The Core B leader will interact frequently with RP and Core C leaders to discuss experimental goals and devise strategies for effective bioinformatics and biostatistical analyses. Successful delivery of Core B services will greatly facilitate the overall program through: (i) serving as a key link of overall program synergy; (ii) mapping transcriptional changes in cells of the human and mouse thymus microenvironment over the perinatal to juvenile transition; and (iii) identifying candidate molecular mechanisms that may play a role in the differential functional potential of cells in the perinatal versus juvenile thymic microenvironment.

项目摘要 单细胞RNA-seq（scRNA-seq）技术的最新进展使得能够量化潜在的RNA表达。 通过鉴定单个细胞的基因表达特征来揭示细胞群体内的异质性， 转录上不同的细胞亚群。此外，scRNA-seq结合适当的生物信息学 分析使发育谱系层次模型和发现罕见的细胞类型， 否则在批量RNA-seq数据中被掩盖。scRNA-seq和bulk的全面系统分析 RNA-seq数据对于该计划中研究项目（RP）的成功至关重要。生物信息学和 生物统计学核心（核心B）旨在满足这一需求。核心B领导人（易博士）已结束 10年生物信息学和生物统计学的研究和教学经验，尤其是在基因表达方面 分析，在实地出版了30多份影响力大的出版物。核心B服务将由这三家公司使用 用于小鼠和人（含核心C）TEC的scRNA-seq和批量RNA-seq数据的生物信息学分析的RP， 基质细胞和HAPCs。核心还将为该计划中的所有实验提供生物统计学支持。 核心B提供的分析方法对所有RP的目标都至关重要。核心将提供服务 在RP的三个任务中，如下所示：任务1。所有研究项目（RP）的数据存储和维护， 核心;任务2。对scRNA-seq和批量RNA-seq数据进行基因表达分析;任务3.提供 RP 1、2、3和核心C生成的数据的一般生物统计学支持。 核心B负责人将经常与RP和核心C负责人互动，讨论实验目标， 制定有效的生物信息学和生物统计分析战略。成功交付核心B服务 将通过以下方式极大地促进整个计划：（i）作为整个计划协同作用的关键环节;（ii）绘制 人和小鼠胸腺微环境细胞在围产期到幼年期的转录变化 （iii）鉴定可能在差异功能性突变中起作用的候选分子机制。 在围产期与青少年胸腺微环境中细胞的潜力。