To assess the specificity of L1000 landmark probe measurements, we procured shRNAs that target landmark genes from The RNAi Consortium (TRC). We restricted this experiment to shRNAs that had been validated to down-regulate their intended target through RT-PCR assays conducted by TRC. We plated MCF7 and PC3 cells onto 384-well plates and used standard arrayed lentiviral protocols to infect the cells with these shRNAs, each of which targets a specific landmark gene, and then profiled the cells by L1000.
