Elucidation of the effects of tonic TCR stimulation and tissue environments of the chromatin status of naive CD4 T (TN) cells

Naive CD4 T (TN) cells show some degree of heterogeneity. However, mechanisms that alter TN cells are still largely unknown, and physiological importance in the phenotypic alteration of TN cells is unclear. Thus, to reveal the mechanisms that alter TN cell characteristics, we performed transposase-accessible chromatin with high-throughput sequencing (ATAC-seq) on TN cells from different secondary lymphoid organs with different strength of tonic TCR stimulation. Overall design: Transposase-accessible chromatin with high-throughput sequencing (ATAC-seq) on TN cells with Nr4a1-dsGFP low and high from three different secondary lymphoid organs (spleen, mesenteric lymph node, axillary lymph node).