The Epigenetic Landscape of T Cell Exhaustion

We used ATAC-Seq to define the accessible chromatin landscape in exhausted CD8+ T cells, showed that it is distinct from functional memory CD8+ T cells, and identified an exhaustion-specific enhancer of PD-1. In addition to the murine T cell data, we will provide the ATAC-Seq data used from human T cells in the paper. Overall design: 10 ATAC-Seq samples from mouse CD8+ cells, two replicates for each of the following conditions [Naive, 8 days after acute LCMV infection, 27 days after acute LCMV infection, 8 days after chronic LCMV infection, 27 days after chronic LCMV infection]. 2 ATAC-Seq samples from EL4 cell line. 19 ATAC-Seq samples of T cells from human patients will be made available in an appropriate NCBI database.

本研究利用转座酶可及性测序（ATAC-Seq）解析了耗竭性CD8+ T细胞的染色质可及性图谱，证实其染色质开放状态与功能性记忆CD8+ T细胞存在显著差异，并鉴定出程序性死亡受体1（PD-1）的耗竭特异性增强子。除小鼠T细胞相关数据外，本研究还将提供论文中使用的人类T细胞转座酶可及性测序数据。
总体实验设计：共获取10例小鼠CD8+ T细胞的转座酶可及性测序样本，对应以下5种实验条件各设置2次生物学重复：初始型CD8+ T细胞、急性淋巴细胞脉络丛脑膜炎病毒（LCMV）感染后8天、急性LCMV感染后27天、慢性LCMV感染后8天、慢性LCMV感染后27天；另包含2例EL4细胞系的转座酶可及性测序样本。本研究将通过合规的美国国家生物技术信息中心（NCBI）数据库发布19例来自人类患者T细胞的转座酶可及性测序样本。