Core B: Bioinformatics & Biostatistics Core

核心B：生物信息学

• 批准号: 10251295
• 负责人: S. Stephen Yi
• 金额: $ 28.79万
• 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/10251295
• 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.

项目总结 单细胞rna-seq(scRNA-seq)技术的最新进展使对潜在的 通过识别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与适当的生物信息学相结合 通过分析，可以对发育谱系进行建模，并发现稀有细胞类型 否则在批量RNA-SEQ数据中被屏蔽。对scRNA-seq和Bulk的全面和系统分析 RNA-SEQ数据对本计划研究项目(RPS)的成功至关重要。生物信息学和 生物统计核心(核心B)就是为满足这一需要而设计的。核心B领导(易博士)已结束 在生物信息学和生物统计学方面有10年的研究和教学经验，特别是在基因表达方面 分析，在该领域出版了30多份影响较大的出版物。这三家公司都将使用核心B服务 RPS用于对小鼠和人(具有核心C)TEC的scRNA-seq和批量RNA-seq数据进行生物信息学分析， 基质细胞和HAPC。该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方案方案的目标至关重要。核心将提供服务 RPS的三项任务如下：任务1.所有研究项目(RP)和 对scRNA-seq和大宗RNA-seq数据进行基因表达分析；任务3。提供 对从RP 1、2、3和Core C生成的数据提供通用生物统计支持。 核心B领导将与RP和核心C领导频繁互动，讨论实验目标和 制定有效的生物信息学和生物统计分析策略。成功交付核心B服务 将通过以下方式极大地促进总体方案：(1)作为总体方案协同的关键环节；(2)映射 人和小鼠胸腺微环境细胞在围产期到幼年期间的转录变化 转变；以及(Iii)确定可能在差异官能团中发挥作用的候选分子机制 围产期与青少年胸腺微环境中细胞的潜能。