Sequencing and Epigenetics Core

测序和表观遗传学核心

基本信息

批准号：
9889889
负责人：
Gregory Seumois
金额：
$ 19.1万
依托单位：
LA JOLLA INSTITUTE FOR IMMUNOLOGY
依托单位国家：
美国
项目类别：
财政年份：
资助国家：
美国
起止时间：
至
项目状态：
未结题

来源：
https://reporter.nih.gov/project-details/9889889
关键词：
ATAC-seq Algorithms Antigens B-Lymphocyte Subsets B-Lymphocytes Bacteria Bioinformatics Biological Assay Blood CD4 Positive T Lymphocytes Cell Count Cell Separation Cells Chromatin Clinical Collaborations Collection DNA DNA Sequencing Facility Data Data Analyses Data Set Dengue Virus Disease Ensure Epigenetic Process Funding Future Gene Expression Profiling Genes Genetic Transcription Genome Health Heterogeneity Human Immune Immune response Immunize Immunology Individual Institutes Libraries Location Macaca mulatta Methods Modification Molecular Molecular Profiling Population Preparation Procedures Property Protocols documentation Quality Control RNA RNA analysis RNA library Reproducibility Research Personnel Role Running Sampling Services Site Small RNA Specimen Standardization Structure of parenchyma of lung T-Lymphocyte Technology Tissue-Specific Gene Expression Tissues Tuberculosis Universities Untranslated RNA Vaccination Virus Work XCL1 gene chromatin immunoprecipitation genetic approach genome-wide human tissue insight interest lymph nodes next generation sequencing novel peripheral blood programs promoter reference genome response single-cell RNA sequencing transcriptome transcriptome sequencing transcriptomics

项目摘要

Sequencing and Epigenetics Core (Core C) Core Summary The proposed projects in this CCHI program will use genetic approaches to define comprehensive molecular properties of specific immune cells in different aspects of immune responses in different diseases and after vaccination from blood and human clinical tissues (lymph nodes and lung tissue). Facing the inherent challenge, of cell abundance and heterogeneity when working with human samples, the CCHI Sequencing and Epigenetics Core, unlike any other external facility, will provide a unique and comprehensive set of procedures especially validated for isolating and processing small numbers of immune cell populations and support downstream single- cell and bulk transcriptomic as well as epigenetic studies. First, the centralized team of the Sequencing Core will provide assistance to all CCHI project users for careful collection of small number of immune cells, adequate processing and storage of samples for all transcriptomic and epigenetic assays listed in the proposal. Second, the Sequencing Core will perform all micro-scaled bulk RNA-seq as well as single-cell RNA sequencing and will provide support for the whole transcriptome analysis, TCR and BCR highly variable sequence extraction from bulk and single-cell RNA-seq datasets. Finally, the Sequencing Core will perform micro-scaled library preparation for epigenetic assays (ATAC- and ChIP-Seq).

测序和表观遗传学核心（核心C）核心摘要该CCHI计划中提出的项目将使用遗传方法来定义综合分子特定免疫细胞在不同疾病中免疫反应的不同方面的特性和之后血液和人类临床组织的疫苗接种（淋巴结和肺组织）。面对固有的挑战，细胞丰度和异质性在使用人类样品时，CCHI测序和表观遗传学与任何其他外部设施不同，核心将提供一套独特而全面的程序经过验证，用于隔离和处理少量的免疫细胞群体，并支持下游单一细胞和散装转录组以及表观遗传学研究。首先，测序核心的集中团队将为所有CCHI项目使用者提供帮助，以仔细收集少量免疫细胞，足够该提案中列出的所有转录组和表观遗传测定的样品的处理和存储。第二，测序核心将执行所有微尺度的大量RNA-seq以及单细胞RNA测序，将为整个转录组分析提供支持，TCR和BCR高度可变序列从散装和单细胞RNA-seq数据集。最后，测序核心将执行微型库库准备用于表观遗传测定（ATAC和CHIP-SEQ）。