SAS shKDM4C cell line RNA sequencing
This study uses RNA-seq analysis to explore the impact of KDM4C, a histone lysine demethylase, on head and neck squamous cell carcinoma (HNSCC). KDM4C modifies histone proteins by removing methyl groups from H3K9me3/2, which affects gene expression. The study focuses on the role of KDM4C in SAS cells, a type of HNSCC cell line, specifically concerning metastasis. Gene Set Enrichment Analysis analyzed RNA-seq data comparing SAS cells with and without KDM4C depletion (sh4C#1 vs. LKO). The result showed that KDM4C significantly influences various metabolic processes, including heme metabolism, peroxisome function, and bile acid metabolism in SAS cells. Additionally, the study performed a KDM4C-ChIP seq analysis on SAS cells to gain further insight into its role. According to Enrichr analysis, GATA1 was the top-ranking transcription factor in these pathways, suggesting its potential interaction with KDM4C in HNSCC. Overall design: RNA-seq analysis (shKDM4C vs. LKO) was conducted on SAS cells to investigate how KDM4C affects metastasis.