Profiling transcription factor activity dynamics using intronic reads in time-series transcriptome data.

ABSTRACT: Activities of transcription factors (TFs) are temporally modulated to regulate dynamic cellular processes, including development, homeostasis, and disease. Recent developments of bioinformatic tools have enabled the analysis of TF activities using transcriptome data. However, because these methods typically use exon-based target expression levels, the estimated TF activities have limited temporal accuracy. To address this, we proposed a TF activity measure based on intron-level information in time-series RNA-seq data, and implemented it to decode the temporal control of TF activities during dynamic processes. We showed that TF activities inferred from intronic reads can better recapitulate instantaneous TF activities compared to the exon-based measure. By analyzing public and our own time-

SUBMITTER: Wu Y 

PROVIDER: S-EPMC8782462 | biostudies-literature | 2022 Jan

REPOSITORIES: biostudies-literature