bladder cancer cell lines sequencing in SOX9 control cells and SOX9 inhibiting cells (PRJCA051456)
Total RNA was extracted from SOX9 knockdown and control T24 cells using TRIzol reagent. RNA quality was assessed using an Agilent Bioanalyzer, and sequencing libraries were prepared using the Illumina TruSeq RNA Library Prep Kit. RNA-seq was performed on an Illumina HiSeq platform. Differentially expressed genes (DEGs) were identified using DESeq2 with a threshold of |log2FC| > 1 and P-value < 0.05. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses were performed using the DAVID database. The GSEA analysis was performed on normalized gene expression data using the GSEA software package, with appropriate gene sets selected and enrichment scores (ES) and p-values calculated for each set.