The non-coding landscape of head and neck squamous cell carcinoma

• DOI: 10.18632/oncotarget.9979
• Publication Date: 2016-06-14T00:21:37Z
• Authors: Angela E. Zou; Hao Zheng; Maarouf A. Saad; Mehran Rahimy; Jonjei Ku; Selena Z. Kuo; Thomas K. Honda; Jessica Wang-Rodr...; Yinan Xuan; Avinaash Korrapati; Vicky Yu; Pranav Singh; Jennifer R. Grandis; Charles C. King; Scott M. Lippman; Xiao Qi Wang; Andrew Hinton; Weg M. Ongkeko
• Keywords: Piwi-interacting RNA

Head and neck squamous cell carcinoma (HNSCC) is an aggressive disease marked by frequent recurrence metastasis stagnant survival rates. To enhance molecular knowledge of HNSCC define a non-coding RNA (ncRNA) landscape the disease, we profiled transcriptome-wide dysregulation long (lncRNA), microRNA (miRNA), PIWI-interacting (piRNA) using RNA-sequencing data from 422 patients in The Cancer Genome Atlas (TCGA). 307 transcripts differentially expressed were significantly correlated with patient survival, associated mutations TP53, CDKN2A, CASP8, PRDM9, FBXW7 copy number variations chromosomes 3, 5, 7, 18. We also observed widespread ncRNA correlation to concurrent TP53 chromosome 3p loss, compelling predictor poor prognosis HNSCCs. Three selected ncRNAs additionally tumor stage, HPV status, other clinical characteristics, modulation their expression vitro reveals differential regulation genes involved epithelial-mesenchymal transition apoptotic response. This comprehensive characterization transcriptome introduces new layers understanding for nominates novel panel potential utility as prognostic markers or therapeutic targets.