Global host gene expression changes in KSHV+ PEL cells upon KSHV reactivation

Kaposi's sarcoma-associated herpesvirus (KSHV) is a human oncogenic virus, which maintains the persistent infection of the host by intermittently reactivating from latently infected cells to produce viral progenies. Here, we performed a comprehensive time course transcriptome analysis during KSHV reactivation in KSHV+ primary effusion B-cell lymphoma cells (PEL). For this we used a recombinant PEL cell line called TRExBCBL1-3xFLAG-RTA. The expression of the N-terminally 3xFLAG-tagged RTA was induced by adding 1 µg/ml doxycycline (Dox) to the medium. Total gene expression changes were identified in TRExBCBL1-3xFLAG-RTA cells at 0, 6, 12, and 24 hours post-induction (hpi). Overall design: RNA-seq libraries were generated from recombinant PEL cells (called TRExBCBL1-3xFLAG-RTA). In total, 12 samples were collected following doxycycline treatment to induce RTA expression for 0, 6, 12 or 24 hours, in triplicate.