Bioinformatics and Computational Biology Core

摘要-生物信息学和预防生物学核心： 生物信息学和计算生物学核心将支持所有三个项目和单细胞 转录组学和表观遗传学核心（SCTE）在一系列活动有关的数据处理，存储， 分布与综合分析。核心的一个关键作用是提供一个集中的门户， 分析项目生成的不同组学数据（RNA-seq、ChIP-seq和ATAC-seq） SCTE核心我们的目标是阐明T细胞的转录组和表观基因组景观， 对急性和慢性病毒感染的反应，并揭示决定状态或 T细胞的命运核心将利用先进的生物信息学工具来处理高维数据矩阵 在免疫反应的不同阶段和在不同组织中产生的， 将应用创新技术来发现核心监管机构。核心将协助这三个项目， SCTE核心实验设计，并与其他研究者密切合作，分析个体数据 集合以及组合数据集。特别是，核心将建立一个数据存款，跟踪，存储 和分发系统，以便在所有参与实验室之间共享数据和跟踪样本。 Core还将建立三条生物信息学管道，分别处理RNA-seq、ChIP-seq和ATAC-seq 数据，包括测序读数作图、质量控制和峰调用。高级分析 如增强子预测、基序分析和遗传网络分析， 关键的调节器决定了特定的T细胞状态。

SUMMARY-BIOINFORMATICS AND COMPUTATIONAL BIOLOGY CORE: The Bioinformatics and Computational Biology Core will support all three Projects and the Single-Cell Transcriptomics and Epigenetics Core (SCTE) in a range of activities related to data processing, storage, distribution and integrative analysis. A key role of the Core is to provide a centralized portal for integrative analysis of the different omics data (RNA-seq, ChIP-seq and ATAC-seq) to be generated by the Projects and SCTE Core. The goal is to illuminate the transcriptomic and epigenomic landscape of T cells in response to acute and chronic viral infection, and uncover the critical regulators that determine the state or fate of T cells. The Core will utilize advanced bioinformatics tools for the high-dimensional data matrices generated at different stages of the immune response and in distinct tissues by the Program Project and will apply innovative techniques to discover core regulators. The Core will assist the three Projects and SCTE Core for experimental design, and work closely with the other Investigators to analyze individual data sets and also the combined data set. In particular, the Core will establish a data deposit, tracking, storage and distribution system to allow data sharing and sample tracking among all the participating laboratories. The Core will also establish three bioinformatics pipelines to process RNA-seq, ChIP-seq and ATAC-seq data respectively, including sequencing read mapping, quality control and peak calling. Advanced analyses such as enhancer prediction, motif analysis and genetic network analysis will also be conducted to reveal the key regulators critical for defining particular T cell states.