Genome wide expression analysis of the effect of senescence associated transcription factor knockdown upon the transcription of senescent cells.

Senescence associated transcription factors were stably knocked down in senescent BJ fibroblasts, which were then profiled by RNA-seq. Overall design: BJ fibroblasts were grown to replicative senescence, at which point they were stably transduced with lentivirus expressing shRNAs targetting the senescence associated transcription factors p65, NFIA, NFIB, NFIC, NFIX, SMAD2, SMAD3, or GFP control. Samples were then harvested for RNA-seq. RNA-seq tag density was calculated over each knockdown sample and compared with control.