Transcriptomic analysis of senescent cells upon EXOC7 knockdown.

IMR90 ER:RAS cells were transfected with scramble siRNA or 2 deconvoluted siRNAs targeting EXOC7 or an siRNA targeting PTBP1. The next day the cells were treated with 4OHT to induce senescence. 5 days later the cells were collected for total mRNA analysis. Our previous experiments had shown that alternative splicing of EXOC7 depends on PTBP1 and PTBP1 is a target for suppressing pro-inflammatory factors in senescence. By performing RNA-seq we confirmed that the pro-inflammatory factors whose expression depends on PTBP1 equally depends on EXOC7. Overall design: 5 conditions were examined: proliferating cells (si_Scramble), senescent cells (si_Scramble + 4OHT), senescent cells transfected with an siRNA targeting EXOC7 (si_EXOC7_3 + 4OHT), senescent cells transfected with a different siRNA targeting EXOC7 (si_EXOC7_4 + 4OHT) and senescent cells transfected with an siRNA targeting PTBP1 (si_PTBP1_5 + 4OHT).