Project description:Overexpression of SOX4 in various kinds of cancers specimen was associated with poor prognosis of patients; however, the role of SOX4 in angiogenesis or tumor microenvironment modulation remains unclear. Therefore the endogenous SOX4 was knockout and the differential gene expression between Hep3B and Hep3B SOX4-/- cells were examined via genechip. We found that the differentially expressed genes, EzH2, a SOX4-associated partner, and CXCL12, were repressed in Hep3B SOX4-/- cells compared with parental Hep3B; these results were further assessed via qRT-PCR in Hep3B SOX4-/- versus Hep3B cells.
Project description:Total RNA was extracted from Hep3B cells with sh-NC (n = 3) or sh-lnc-CTHCC (n = 3). RNA samples were analyzed by RNA sequencing based on the manufacturer’s protocols. Briefly, Illumina HiSeq 4000 platform was used to sequence the RNA samples for the subsequent generation of raw data. R package was utilized to select genes with significantly differential expression based on fold change ≥2.0 and P≤0.05 between sh-NC and sh-lnc-CTHCC cells. KEGG pathway and GSEA enrichment analysis were used for functional pathway analysis.
Project description:Hep3B and Huh7 cells pre-treated with XL413 for 10 days to induce senescence prior to sertraline treatment for 24 hours. For RNA sequencing, the library was prepared using TruSeq RNA sample prep kit according to the manufacturer’s protocol (Illumina). Gene set enrichment analysis was performed using gene set enrichment analysis software.
Project description:We were interested in identifying novel splice junctions in Hep3B cells, especially in genes involved in cholesterol metabolism like HMGCR, so we sequenced polyA-tailed RNA from Hep3B cells.
Project description:We were interested in identifying novel splice junctions in Hep3B cells, especially in genes involved in cholesterol metabolism like HMGCR, so we sequenced polyA-tailed RNA from Hep3B cells. 1 polyA-selected RNA sample was sequenced from Hep3B cells