Core B: Bioinformatics & Biostatistics Core

核心B：生物信息学

• 批准号: 10022935
• 负责人: S. Stephen Yi
• 金额: $ 31.72万
• 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/10022935
• 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）技术的最新进展已实现了基础的量化 通过鉴定单个细胞的基因表达特征以揭示细胞群体中的异质性 转录不同的细胞子集。此外，SCRNA-SEQ与适当的生物信息学结合 分析能够对发展谱系层次结构进行建模和发现稀有细胞类型的建模 否则用大量RNA-seq数据掩盖。 SCRNA-SEQ和BULK的全面和系统分析 RNA-seq数据对于该程序中的研究项目（RPS）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领导者（Stephen Yi博士）已经结束 生物信息学和生物统计学研究和教学的10年经验，尤其是基因表达方面的经验 分析，导致该领域有30多个高影响力出版物。核心B服务将由这三个服务使用 RPS用于SCRNA-SEQ和BOLK RNA-SEQ的生物信息学分析有关小鼠和人类的BOLK RNA-SEQ数据（带有Core C）TEC， 基质细胞和HAPC。核心还将为程序中的所有实验提供生物统计学支持。 核心B提供的分析方法对于所有RP的目标至关重要。核心将提供服务 在RPS的三个任务中如下：任务1。所有研究项目（RP）和 内核；任务2。对SCRNA-Seq和Bulk RNA-Seq数据进行基因表达分析；任务3。提供 一般生物统计学支持RP 1、2、3和CoreC的数据。 核心B领导者将与RP和Core C领导者经常互动，以讨论实验目标和 制定有效的生物信息学和生物统计分析的策略。成功交付核心B服务 通过以下方式将极大地促进整个计划：（i）作为整体计划协同作用的关键链接； （ii）映射 人类和小鼠胸腺微环境的细胞转录变化在围产期至少年 过渡; （iii）识别可能在差异功能中起作用的候选分子机制 细胞在围产期与青少年胸腺微环境中的潜力。