Abstract

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Title:: Bioinformatic analysis validates lncRNA signature as a predictor of overall survival in patients with HPV-negative head and neck squamous cell carcinoma

Author(s):: HUANG Yu1; YANG Bo2; LI Weizhong1; 1. Department of Oral and Maxillofacial Surgery, Nanfang Hospital, Southern Medical University, Guangzhou 510000, China 2. Department of Stomatology, Nanfang Hospital, Southern Medical University, Guangzhou 510000, China

Keywords:: Keywords: head and neck squamous cell carcinoma long non-coding RNA human papillomavirus survival bioinformatics analysis

Abstract:: Abstract: Objective To investigate the factors affecting the overall survival in patients with HPV-negative head and neck squamous cell carcinoma (HNSCC) by bioinformatics analysis, thereby providing evidence for the prognosis prediction and therapy in HNSCC. Methods The raw RNA sequencing data of the primary tumor and adjacent tissue of HPV-negative HNSCC patients were obtained from the TCGA database and the corresponding clinical information were collected. Survival R toolkit was used to perform univariate Cox regression analysis on all differentially expressed lncRNA a Java program was used to carry out gene set enrichment analysis using the MSigDB C2 classic pathway gene set collection and LASSO Cox regression was used for data dimensionality reduction and model building, and the risk score for each patient was calculated. Results There were 153 lncRNA which were significantly associated with overall survival in HPV-negative HNSCC patients. Time-dependent analysis showed that 13 lncRNA had good predictive performance in the training set. Multivariate Cox regression and stratified analysis revealed that the risk score based on the 13-lncRNA signature could be served as an independent prognostic factor for HPV-negative HNSCC patients. Conclusion The 13-lncRNA signature may be a novel independent biomarker for the prognosis of HPV-negative HNSCC.