A Prognostic 5-lncRNA Expression Signature for Head and Neck Squamous Cell Carcinoma

Abstract

Head and neck squamous cell carcinoma (HNSCC) is a common malignant cancer that accounts for 5–10% of all cancers. This study aimed to identify essential genes associated with the prognosis of HNSCC and construct a powerful prognostic model for the risk assessment of HNSCC. RNAseq expression profile data for the patients with HNSCC were obtained from the TCGA database (GEO). A total of 500 samples with full clinical following-up were randomly divided into a training set and a validation set. The training set was used to screen for differentially expressed lncRNAs. Single-factor survival analysis was performed to obtain lncRNAs that associated with prognosis. A robust likelihood-based survival model was constructed to identify the lncRNAs that are essential for the prognosis of HNSCC. A co-expression network between genes and lncRNAs was also constructed to identify lncRNAs co-expressed with genes to serve as the final signature lncRNAs for prognosis. Finally, the prognostic effect of the signature lncRNAs was tested by multi-factor survival analysis and a scoring model for the prognosis of HNSCC was constructed. Moreover, the results of the validation set and the relative expression levels of the signature lncRNAs in the tumour and the adjacent tissue were consistent with the results of the training set. The 5 lncRNAs were distributed among 3 expression modules. Further KEGG pathway enrichment analysis showed that these 3 co-expressed modules participate in different pathways, and many of these pathways are associated with the development and progression of disease. Therefore, we proposed that the 5 validated lncRNAs can be used to predict the prognosis of HNSCC patients and can be applied in postoperative treatment and follow-up.

miR‐30e‐5p represses angiogenesis and metastasis by directly targeting AEG‐1 in squamous cell carcinoma of the head and neck

“…Squamous cell carcinoma of the head and neck JHU011, CAL33 and CAL27 cell lines were kindly provided by Dr Joseph Califano (University of California, San Diego, USA). Tu686 cell line was kindly provided by Dr Zhuo G. Chen (Emory University Winship Cancer Institute, USA) . Tca8113 cell line was obtained from The Cell Bank of Type Culture Collection of Chinese Academy of Sciences.…”

Transcriptomics and Epigenomics in head and neck cancer: available repositories and molecular signatures

“…A large portion of the studies regarded mRNA signatures (33/61) , while a minor portion of the studies considered miRNA signatures (11/61) [52][53][54][55][56][57][58][59][60][61][62] and other non-coding RNA signatures (13/61) [63][64][65][66][67][68][69][70][71][72][73][74][75][76]. Only 4/61 [77][78][79][80] studies identified signatures by a high-throughput omics analysis of methylated DNA.…”

OTUD6B-AS1 Inhibits Viability, Migration, and Invasion of Thyroid Carcinoma by Targeting miR-183-5p and miR-21

“…Long noncoding RNAs (lncRNAs) refer to the type of noncoding RNA that is derived from genome-encoded transcripts with lengths longer than 200 RNA nucleotides (3). Recent studies suggest it may be directly involved in the regulation of development of tumor cells (4)(5)(6). LncRNAs are involved in the regulatory network of thyroid carcinomas.…”