Comparison of global expression changes by fs(1)h knockdown by RNAi and BET inhibitor treatment. (A) Western blots indicate efficient FSH protein depletion in S2-DRSC cells after 3 days of dsRNA-treatment. Numbers above lanes mark samples from two biological replicates done in parallel. (B) Differential expression analysis by RNA-seq. The upper row shows MA plots comparing gene expression in FSH knockdown cells (DRSC29017 and FSH-L) and cells treated with control dsRNA (eGFP). The lower row shows volcano plots of the same data, illustrating the selection of differentially expressed genes according to a combined P value, fold change cut-off. Blue lines indicate the chosen two-fold gene expression cut-off. The red lines illustrates the 5% significance level according to the adjusted P value <0.05 computed using DESeq's multiple testing procedure. The number of genes passing both selection criteria are given on top.
Kockmann et al. Genome Biology 2013 14:R18 doi:10.1186/gb-2013-14-2-r18