Genome-wide measurement of LPS-induced Poly(A) tail length changes in macrophage cells

We applied Tail-end-displacement sequencing (TED-seq) for high-throughput profiling of poly(A) tail length dynamics induced by LPS stimulation in macrophage cells. We generate a time-course poly(A) tail length profiles in PMA-differentated THP-1 cells upon LPS stimulation (unstimulated, and post-stimulation 1, 2, and 4 h). This approach enabled us to profile induced poly(A) tail length dynamics with high accuracy and with 3´isoform resolution, generating a comprehensive view of poly(A) tail length dynamics induced upon an environmental signal in post-embryonic systems, and its biological implications. Overall design: Examination of nascent RNA synthesis, poly(A) tail lengths and mRNA levels with 3´UTR isoform resolution in PMA-differentiated THP-1 cells before and after LPS stimulation time-course. This study consists of 24 libraries generated from 2 bioreplicates per condition (0, 1, 2, and 4 hours upon LPS) for PRO-seq, TED-seq, and 3'-seq, respectively.