Transcriptomics analysis of NOP16-regulated genes in MDA-MB231 cells [RNA-seq]

The goal of RNA-seq is to identify the global transcriptional alteration by NOP16 overexpression or deletion in triple negative breast cancer cell line MDA-MB231 cells. Three (or Two) biological replicates were assigned for each group and in total 6 groups were prepared for these RNA seq libraries. We mapped about 20 million reads per sample to hg38 human reference genome, and counted and normalized each reads number and identified the differentially expressed genes. (1) RNA-seq analysis using MDA-MB231-NOP16 stably overexpression(OE1 or OE4) and empty vector control(E.V.) (2) RNA-seq analysis using MDA-MB231-NOP16 bulk KO (KO1 or KO4) and control line(no guide RNA control: n.g.) Total RNA was extracted from each cell lines, and cDNA libraries were generated for NGS sequencing in biological triplicate (or partially duplicate), and sequenced by NovaSeq 6000. (2) RNA-seq analysis using MDA-MB231-NOP16 bulk KO (KO1 or KO4) and control line(no guide RNA control: n.g.) Total RNA was extracted from each cell lines, and cDNA libraries were generated for NGS sequencing in biological triplicate (or partially duplicate), and sequenced by NovaSeq 6000.