Genome-wide chromatin accessibility profiling of Prdm12-edited CD8+ T cells by ATAC-seq

This study investigates the impact of Prdm12 knockout on chromatin accessibility in CD8+ T cells. CD8+ T cells were isolated from spleens of OTI:Cas9 transgenic mice (C57BL/6 background) using magnetic bead-based negative selection. Isolated cells were subjected to CRISPR-Cas9 mediated gene editing targeting Prdm12 (Prdm12-KO group) or a non-targeting control guide RNA (Control group) via ribonucleoprotein (RNP) complex electroporation. ATAC-seq was performed to compare genome-wide chromatin accessibility between edited (treatment) and non-edited (control) cells, aiming to identify regulatory regions associated with Prdm12 function. Overall design: Comparative analysis of chromatin accessibility in CD8+ T cells with and without Prdm12 knockout.Two experimental groups were established:Treatment group: CD8+ T cells edited with Prdm12-targeting RNP;Control group: Non-edited CD8+ T cells.Chromatin accessibility was profiled using ATAC-seq for both groups. The experiment aims to identify differentially accessible regulatory regions influenced by Prdm12 deletion.