KAP1/TRIM28 maintains the transcriptional state of cancer cells. KAP1/TRIM28 maintains the transcriptional state of cancer cells

We report the genome-wide effects of KAP1 loss on the transcriptome, the chromatin state, and on recruitment of various components of the transcription machinery in the colon colorectal cancer cell line HCT116. Overall design: Genome-wide binding profiles of total and phosphorylated Pol II, CDK9, and NELFE in Ctrl vs KAP1 KO cells. Nascent and steady-state RNA expression levels in Ctrl vs KAP1 KO cells. Nucleosome occupancy profiles (MNase-seq) in Ctrl vs KAP1 KO cells

本研究报道了结直肠癌细胞系HCT116中，KAP1缺失对转录组、染色质状态，以及转录机器各组分招募情况的全基因组影响。整体实验设计：在对照组（Ctrl）与KAP1敲除（KO）细胞中，分别检测总RNA聚合酶II（Pol II）及其磷酸化形式、CDK9、NELFE的全基因组结合图谱；检测两组细胞的新生RNA与稳态RNA表达水平；检测两组细胞的核小体占位图谱（微球菌核酸酶测序，MNase-seq）。