A cost‐effective tsCUT&Tag method for profiling transcription factor binding landscape
Leiming Wu, Zi Wei Luo, Yanni Shi, Yizhe Jiang, Ruonan Li, Xinxin Miao, Fang� Yang, Qing Li, Han Zhao, Jiquan Xue, Shutu Xu, Tifu Zhang, Lin Li
Abstract
Knowledge of the transcription factor binding landscape (TFBL) is necessary to analyze gene regulatory networks for important agronomic traits. However, a low-cost and high-throughput in vivo chromatin profiling method is still lacking in plants. Here, we developed a transient and simplified cleavage under targets and tagmentation (tsCUT&Tag) that combines transient expression of transcription factor proteins in protoplasts with a simplified CUT&Tag without nucleus extraction. Our tsCUT&Tag method provided higher data quality and signal resolution with lower sequencing depth compared with traditional ChIP-seq. Furthermore, we developed a strategy combining tsCUT&Tag with machine learning, which has great potential for profiling the TFBL across plant development.