Subpath analysis of each subtype of head and neck cancer based on the regulatory relationship between miRNAs and biological pathways

Abstract

Abstract. The aim of the present study was to explore the potential mechanisms involved in each subtype of head and neck squamous cell carcinoma (HNSCC) via subpath analysis and to investigate their relevance in the prevention of HNSCC. Gene expression profiles of GSE6631 and GSE39366 containing 44 and 168 HNSCC samples, respectively, were downloaded from the Gene Expression Omnibus (GEO) database. Differentially expressed genes (DEGs) from samples in GSE6631 and GSE393666 were screened using the Detection of Imbalanced Differential Signal (DIDS) method respectively. DEGs in GSE39366 were matched with the DEGs in GSE6631 and were used to classify the subtypes of HNSCC based on hierarchical clustering analysis. Furthermore, DEGs were separated into different subtypes and then the pathway information was analyzed. The regulated miRNAs for the DEGs in each subtype were analyzed to select the significant subpaths. Totally, 1,095 DEGs from GSE6631 and 2,528 DEGs from GSE39366 were screened. Samples in GSE39366 were separated into four subtypes. Specific genes in each subtype and DEGs in the common gene set involved in a variety of pathways were identified. In addition, the significant miRNAtarget-pathway subpath of each subtype of HNSCC and the common gene set of HNSCC were also enriched. Our data suggest that human papillomavirus (HPV) is positively correlated with HNSCC in subtype 2. Several miRNAs (miRLet-7A, miR-1, miR-206, miR-153, miR-519A and miR-506) and their target genes (CYP46A1, BPNT1, MCM7 and COL5A1) are crucial for HNSCC prevention via different pathways and may provide further knowledge of the mechanisms involved in the progression of HNSCC.

The emerging role of miR-506 in cancer

“…Moreover, other studies have investigated the potential roles of miR-506 in cancer. Through subpathway analysis of each subtype of head and neck squamous cell carcinoma (HNSCC), An et al demonstrated that several miRNAs (miR-506, let-7a, miR-1, miR-206, miR-153, and miR-519a) and their target genes play crucial roles in the prevention of HNSCC via regulating several distinct pathways [ 62 ]. Li et al reported that miR-506 was the most significant miRNA screened by a bioinformatics strategy in prostate cancer and was found to regulate genes including ITGB1 and ITGB3 by binding the target sequence GUGCCUU [ 63 ].…”

Retracted: MicroRNA‐519a promotes proliferation and inhibits apoptosis of hepatocellular carcinoma cells by targeting FOXF2

“…Study of ER+ breast cancer demonstrated that miR-519a served as an oncomir by regulating tamoxifen resistance and its elevated expression was correlated with poor survival of breast cancer patients [13] . Statistical analysis of Gene Expression Omnibus (GEO) database showed that miR-519a was involved in the progression of head and neck squamous cell carcinoma [14] . However, the clinical significance and functional role of miR-519a in HCC were still undefined.…”

Dynamic edge-based biomarker non-invasively predicts hepatocellular carcinoma with hepatitis B virus infection for individual patients based on blood testing

“…Meanwhile, the type V collagen assembled by COL5A1 may mediate interleukin products and further regulate immune responses, which play especially important roles in auto-immunity (Yamada et al, 2009; Sullivan et al, 2017). Another possible mechanism is COL5A1 ’s involvement in extracellular matrix (ECM) formation (An et al, 2015). CLO5A1 has been verified to be correlated with several types of cancer (Fan et al, 2016; Zhao et al, 2016; Li et al, 2017a; Liu et al, 2018).…”