Transcriptomic analysis of human extravillous trophoblast cells (HTR8/Svneo) cultured as 3D spheroids and 2D monolayers

The current objectives are to develop a 3D spheroid model that will allow us to better emulate placental invasion in vitro and to characterize the transcriptomic and functional outcomes. 200 ng of RNA was processed to assess 20,000+ genes using the Clarion S Human microarray (Thermo Fisher) and GeneChip™ 3000 instrument system (Thermo Fisher), all carried out at the SickKids TCAG Microarray facility. There are four biological replicates per group, and two groups in total (3D vs. 2D). Normalization and output file generation was performed with Affymetrix Gene Expression Console (Thermo) using the Robust Multi-Chip Analysis (RMA) algorithm [RMA-Gene-full].