ATP11C Knock down in clone E3 from colon cancer CC14 primary culture

In order to explore the role of ATP11C in the metastatic potential of the highly metastatic clone E3 we knocked it down using an shRNA in a lentiviral backbone. Here we aimed to explore the transcriptome of E3 cells on which the expression of ATP11C has been knocked down. Overall design: E3 clonal cells from primary colon cancer cells (CC14) were infected with pLKO.1 empty backbone as control or with shATP11C, 10 days after infection, cells were harvested and total RNA extracted using TRIzol Reagent (Ambion) following the manufacturer's protocol. Each condition was independently processed in triplicates and the libraries were prepared using Illumina TruSeq protocols. The samples were sequenced on a HiSeq Illumina 4000 machine with 50bp reads followed by standard analyses.