RNA-Sequencing analysis of Meox1 siRNA knockdown in p53 and PTEN deficient triple negative breast cancer in vitro cell lines of BT-549 and MDA-MB-468

The goal for this experiment was to analyze how knockdown of homeobox transcription factor Meox1 altered functional and mechanist biology of p53 and PTEN deficient triple negative breast cancer in vitro cell lines of claudin-low BT-549 and basal-like MDA-MB-468. Overall design: Two different subtypes of triple negative breast cancer with p53 and PTEN deficiencies were utilized, claudin-low BT-549 and basal-like MDA-MB-468. For knocking down Meox1, siRNA transfection experiment was conducted with Negative Control siRNA and Meox1 siRNA, two biological replicates using Negative Control siRNA and Meox1 siRNA for each cell line were conducted. For RNA Seqeuncing, two technical replicates for each biological replicate were sequenced, making a total of 16 samples for sequencing.