Next generation sequencing analysis of knockdown-Control and LINC00842-knockdown pancreatic cancer cell lines transcriptomes

Gene expression profiling of pancreatic cancer cell PANC-1 and SW1990 when LINC00842 knockdown by CRISPR/Cas9 system. We identified LINC00842 is a novel prognosis related lincRNA in pancreatic cancer and its regulation networks is poorly understood. We used the total RNA from knockdown control and LINC00842-knockdown PANC-1 and SW1990 cells to analyze the differentially expressed genes which were regulated by LINC00842, and further explored the biological processes that LINC00842 may involved. Overall design: Two-condition experiment, LINC00842-KD vs. KD-Ctrl PANC-1 and SW1990 cells, respectively. For construction of LINC00842 knockdown cells, we knocked in a 3 × poly (A) transcription stop cassette into the 5' region of LINC00842 to transcriptional inhibited its expression by using CRISPR/Cas9 system. Biological replicates: 1 LINC00842-KD cell, 1 KD-Ctrl cell.