In this experiment, the effect of reduced CDX2 expression on the trophoblast stem cells (TSCs) transcriptome was assayed. Overall design: Transcriptional profiles were generated from three independent biological replicates in four experimental conditions. shRNA vectors containing a constitutively active mCherry cassette to visualise and isolate transfected and non-transfected populations. Positively transfected CDX2 knockdown TSCs were compared with control transfected and untransfected TSC populations.