Genome wide chromatin accessibility (ATAC-SEQ) in the presence or absence of Ikaros in CD4+ T cells.. Genome wide chromatin accessibility (ATAC-SEQ) in the presence or absence of Ikaros in CD4+ T cells.

We found that Ikaros is critical to limit the expression of pro-inflammatory cytokines in TCR/CD28-activated CD4+ T cells. To understand if Ikaros could modify the chromatin accessibility in regions controling the expression of these pro-inflammatory genes, we examined the chromatin state in naive CD4+ T cells and CD4+ T cells activated with anti-CD3+anti-CD28 antibodies for 1 and 2 days, from WT (Ikaros f/f CD4-Cre-) and Ikaros TKO mice (Ikaros f/f CD4-Cre+), using the ATAC-seq approach. Overall design: ATAC-seq of naive and activated CD4+ T cells in WT and Ikaros TKO mice.

我们发现，Ikaros在T细胞受体/CD28（TCR/CD28）活化的CD4阳性T细胞中，对抑制促炎细胞因子（pro-inflammatory cytokines）的表达发挥关键作用。为探究Ikaros是否可调控促炎基因表达区域的染色质可及性（chromatin accessibility），我们采用转座酶可及性测序（Assay for Transposase-Accessible Chromatin using sequencing, ATAC-seq）技术，分析了野生型（Wild Type, WT，Ikaros f/f CD4-Cre-）与Ikaros T细胞特异性敲除（T-cell specific knockout, TKO，Ikaros f/f CD4-Cre+）小鼠的三类CD4阳性T细胞样本：初始CD4阳性T细胞，以及经抗CD3+抗CD28抗体活化1天、2天的CD4阳性T细胞的染色质状态。整体实验设计：野生型及Ikaros TKO小鼠的初始与活化CD4阳性T细胞的ATAC-seq分析。