Effect of depletion of CBX1 on gene expression of SUNE1 cells [RNA-seq]

Nasopharyngeal carcinoma (NPC), which arises from the nasopharyngeal pharynx, is a metastasis-prone malignancy highly prevalent in East and Southeast Asia, especially southern China. Despite progress in chemo-radiotherapeutic strategies, about 20% of NPC patients still suffer from distant metastasis, thus developing new therapeutic strategies for NPC is of vital importance. N6-methyladenosine (m6A) RNA modification, the most abundant epitranscriptomic modification in eukaryotic mRNA, has attracted great attention in cancer research because of its vital biological functions. However, little is known about the underlying molecular mechanisms between m6A modification and NPC progression. We aimed to identified differential m6A peaks by analyzing the m6A modification profile in NPC with paired tissues with or without metastasis using m6A-seq. For RNA-seq and ChIP-seq, we aimed to identified the downstream targets of CBX1 in NPC. Comparative gene expression profiling analysis of RNA-seq data for SUNE1 cells (sgCBX1 and sgNC). To investigate the CBX1 in the progression of nasopharyngeal carcinoma, we established SUNE1 cell lines in which CBX1 has been knocked out by sgRNA. We then performed gene expression profiling analysis using data obtained from RNA-seq of sgNC and sgCBX1.