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Genomics Core

基因组学核心

基本信息

批准号：
10685624
负责人：
CORNELIS MURRE
金额：
$ 37.73万
依托单位：
RESEARCH INST OF FOX CHASE CAN CTR
依托单位国家：
美国
项目类别：
财政年份：
2014
资助国家：
美国
起止时间：
2014-05-15 至 2024-07-31
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/10685624
关键词：
ATAC-seq Antibodies Architecture Binding Binding Sites Bioinformatics Cell Lineage Cells ChIP-seq Chromatin Common Core Conceptions Core Facility DNA sequencing DNA-Binding Proteins Data Data Analyses Data Set Data Storage and Retrieval Development E protein Enhancers Epigenetic Process Experimental Designs Genomic approach Genomics Grant Host Defense Human Individual Intervention Laboratories Maps Methods Molecular Mus Nuclear Pattern Population Postdoctoral Fellow Preparation Procedures Process Promoter Regions Quality Control Reagent Reproducibility Research Personnel Sampling Services Signal Transduction Site Specific qualifier value Standardization System T-Lymphocyte Techniques Technology Training Work bioinformatics pipeline bioinformatics tool data acquisition data sharing effector T cell experimental study genome-wide genome-wide analysis genomic locus graduate student innovation insight instrumentation laboratory experiment member multidimensional data novel progenitor programs response sample fixation sequencing platform single cell analysis single-cell RNA sequencing skills stem cells synergism technology platform transcription factor transcriptome sequencing transcriptomics γδ T cells

项目摘要

PROJECT SUMMARY/ABSTRACT The objective of this program project application is to gain insight into the molecular basis by which genome- wide remodeling of E box DNA binding protein activity, in response to TCR signals, controls the development and functional specialization of γδ T cells, which are critically important to host defense. In supporting this effort, the Genomics Core would provide centralized access to scRNA-Seq, ChIP-Seq, ATAC-Seq and HiC sequencing platforms to allow large-scale genomic location analysis of transcription factors as well as epigenetic marks to reveal and describe the chromatin landscapes of αβ and γδ T-lineage cells. The Genomics Core would generate robust single-cell transcriptomic and small-cell-number epigenetic datasets, epigenetic landscapes as well as methods to describe the folding patterns of human and murine αβ and γδ T-lineage cells in global terms. The Genomics Core would assist the participating laboratories for experimental design and work closely with the participating members of the program to analyze individual, as well as, combined data sets. The Genomics Core will also continue to generate new bioinformatics pipelines to process genome-wide data sets obtained from bulk populations as well as data obtained from single cells. Finally, in addition to the provision of core services, the Genomics Core would be a hub for the training of graduate students and postdoctoral fellows in the utilization of deep DNA sequencing and associated bioinformatics techniques for the participating laboratories.

项目总结/摘要该计划项目申请的目标是深入了解基因组的分子基础- E盒DNA结合蛋白活性的广泛重塑，响应TCR信号，控制着肿瘤的发展。和γδ T细胞的功能特化，这对宿主防御至关重要。在支持这一努力时，基因组学核心将提供对scRNA-Seq、ChIP-Seq、ATAC-Seq和HiC的集中访问测序平台，以允许转录因子的大规模基因组定位分析以及表观遗传分析，标记来揭示和描述αβ和γδ T谱系细胞的染色质景观。基因组学核心将生成强大的单细胞转录组和小细胞数量表观遗传数据集，表观遗传景观，以及以全局术语描述人和鼠αβ和γδ T谱系细胞的折叠模式的方法。基因组学核心将协助参与实验室进行实验设计，并与该计划的参与成员分析个人以及组合数据集。基因组学核心还将继续产生新的生物信息学管道，以处理获得的全基因组数据集。从大量群体以及从单细胞获得的数据。最后，除了提供核心服务，基因组学核心将是一个枢纽，为培训研究生和博士后研究员，利用深度DNA测序和相关的生物信息学技术， laboratories.