Expression analysis of radio-resistant and -sensitive head and neck cancer cells

Head and Neck Squamous Cell Carcinoma (HNSCC) is a common cause of cancer death. Despite enormous technical advances in surgery and radiotherapy in the recent decade, survival of HNSCC patients has not markedly improved, with only 30% of patients diagnosed with advanced HNSCC that will survive for 5 years. This highlights the need to look into molecular processes leading to mechanisms of HNSCC radioresistance in HNSCC and identify novel radiosensitizers. To identify the lncRNAs associated with radiotherapy resistance in HNSCC, we performed RNA-seq analysis of radiation resistant and sensitive HNSCC cells. We performed RNA-seq analysis of the isogenic SCC61 and RTR61 cell pair, as well as in two radioresistant single clones RTR61-1 and RTR61-4 derived from the total RTR61 cell population. We also used another isogenic pair, radiosensitive SCC154 cells and radioresistant RTR154 cells, and two radioresistant single clones RTR154-1 and RTR154-4 isolated from the RTR154 total population. Finally, we determined the lncRNA expression profiles of 4 radioresistant and 5 radiosensitive HNSCC cell lines