Head and neck squamous cell carcinoma (HNSCC) is one of the most prevalent neoplasms of malignancy. The pathogenesis of HNSCC is involved in the change of gene expression and the abnormal interaction between genes.
OBJECTIVE:
The purpose of our research is to find genes that affect the survival time of patients and construct circRNA-lncRNA-miRNA-mRNA network. This paper aims to reveal the development mechanism of HNSCC and provide new ideas for clinical prognosis prediction.
METHODS:
Transcriptome data were obtained from TCGA and GEO databases. A total of 556 samples were included. We screened the differentially expressed lncRNAs, circRNAs and mRNAs to predict interactions between lncRNA-miRNA, circRNA-miRNA and miRNA-mRNA. Then, we selected the hub mRNAs to predict the prognosis of patients.
RESULTS:
We identified 8 hub prognostic mRNAs (FAM111A, IFIT2, CAV1, KLF9, OCIAD2, SLCO3A1, S100A16 and APOL3) by a series of bioinformatics analyses and established the prognostic ceRNA network of 8 mRNAs, 3 miRNAs, 2 circRNAs and 1 lncRNAs according to the targeting relationship by using databases.
CONCLUSION:
We established the circRNA-lncRNA-miRNA-mRNA gene interaction network in HNSCC. We illuminated the molecular mechanism underlying the gene regulation associated with the pathogenesis of HNSCC and predicted the biomarkers related to prognosis.
JohnsonDEBurtnessBLeemansCRLuiVWYBaumanJEGrandisJR. Head and neck squamous cell carcinoma. Nat Rev Dis Primers.2020; 6(1): 92.
2.
TumbanE. A Current Update on Human Papillomavirus-Associated Head and Neck Cancers. Viruses.2019; 11(10).
3.
CohenEEWBellRBBifulcoCBBurtnessBGillisonMLHarringtonKJ, et al. The Society for Immunotherapy of Cancer consensus statement on immunotherapy for the treatment of squamous cell carcinoma of the head and neck (HNSCC). J Immunother Cancer.2019; 7(1): 184.
4.
SunXZhangLLiuS. The Immune Infiltration in HNSCC and Its Clinical Value: A Comprehensive Study Based on the TCGA and GEO Databases. Comput Math Methods Med.2021; 2021: 1163250.
5.
JakobMSharafKSchirmerMLeuMKüfferSBertlichM, et al. Role of cancer stem cell markers ALDH1, BCL11B, BMI-1, and CD44 in the prognosis of advanced HNSCC. Strahlenther Onkol.2021; 197(3): 231-45.
6.
ClancyKHamillCSO’NeillWQVuBThuenerJGuiS, et al. Impact of p16 Status and Anatomical Site in Anti-PD-1 Immunotherapy-Treated Recurrent/Metastatic Head and Neck Squamous Cell Carcinoma Patients. Cancers (Basel).2021; 13(19).
7.
KitamuraNSentoSYoshizawaYSasabeEKudoYYamamotoT. Current Trends and Future Prospects of Molecular Targeted Therapy in Head and Neck Squamous Cell Carcinoma. Int J Mol Sci.2020; 22(1).
8.
XuXZhangJTianYGaoYDongXChenW, et al. CircRNA inhibits DNA damage repair by interacting with host gene. Mol Cancer.2020; 19(1): 128.
9.
ZhangDNiNWangYTangZGaoHJuY, et al. CircRNA-vgll3 promotes osteogenic differentiation of adipose-derived mesenchymal stem cells via modulating miRNA-dependent integrin a5 expression. Cell Death Differ.2021; 28(1): 283-302.
10.
LiuZYuYHuangZKongYHuXXiaoW, et al. CircRNA-5692 inhibits the progression of hepatocellular carcinoma by sponging miR-328-5p to enhance DAB2IP expression. Cell Death Dis.2019; 10(12): 900.
11.
ShiKLiuTFuHLiWZhengX. Genome-wide analysis of lncRNA stability in human. PLoS Comput Biol.2021; 17(4): e1008918.
12.
WuXSuiZZhangHWangYYuZ. Integrated Analysis of lncRNA-Mediated ceRNA Network in Lung Adenocarcinoma. Front Oncol.2020; 10: 554759.
13.
MaCShiTQuZZhangAWuZZhaoH, et al. CircRNA_ACAP2 Suppresses EMT in Head and Neck Squamous Cell Carcinoma by Targeting the miR-21-5p/STAT3 Signaling Axis. Front Oncol.2020; 10: 583682.
TianYZhongLGaoSYuYSunDLiuX, et al. LncRNA LINC00974 Downregulates miR-122 to Upregulate RhoA in Oral Squamous Cell Carcinoma. Cancer Biother Radiopharm.2021; 36(1): 18-22.
16.
TangTZengF. NFIB-Mediated lncRNA PVT1 Aggravates Laryngeal Squamous Cell Carcinoma Progression via the miR-1301-3p/MBNL1 Axis. J Immunol Res.2021; 2021: 8675123.
17.
DongFRuanSWangJXiaYLeKXiaoX, et al. M2 macrophage-induced lncRNA PCAT6 facilitates tumorigenesis and angiogenesis of triple-negative breast cancer through modulation of VEGFR2. Cell Death Dis.2020; 11(9): 728.
18.
SangYChenBSongXLiYLiangYHanD, et al. circRNA_0025202 Regulates Tamoxifen Sensitivity and Tumor Progression via Regulating the miR-182-5p/FOXO3a Axis in Breast Cancer. Mol Ther.2019; 27(9): 1638-52.
19.
PanYLiuGWangDLiY. Analysis of lncRNA-Mediated ceRNA Crosstalk and Identification of Prognostic Signature in Head and Neck Squamous Cell Carcinoma. Front Pharmacol.2019; 10: 150.
20.
XiaSFengJChenKMaYGongJCaiF, et al. CSCD: a database for cancer-specific circular RNAs. Nucleic Acids Res.2018; 46(D1): D925-D9.
21.
Fernandez-RetanaJZamudio-MezaHRodriguez-MoralesMPedroza-TorresAIsla-OrtizDHerreraL, et al. Gene signature based on degradome-related genes can predict distal metastasis in cervical cancer patients. Tumour Biol.2017; 39(6): 1010428317711895.
22.
GlažarPPapavasileiouPRajewskyN. circBase: a database for circular RNAs. RNA.2014; 20(11): 1666-70.
23.
JeggariAMarksDSLarssonE. miRcode: a map of putative microRNA target sites in the long non-coding transcriptome. Bioinformatics.2012; 28(15): 2062-3.
24.
FrommBBillippTPeckLEJohansenMTarverJEKingBL, et al. A Uniform System for the Annotation of Vertebrate microRNA Genes and the Evolution of the Human microRNAome. Annu Rev Genet.2015; 49: 213-42.
25.
HsuSDLinFMWuWYLiangCHuangWCChanWL, et al. miRTarBase: a database curates experimentally validated microRNA-target interactions. Nucleic Acids Res.2011; 39(Database issue): D163-9.
26.
ColwillKGräslundS. A roadmap to generate renewable protein binders to the human proteome. Nat Methods.2011; 8(7): 551-8.
27.
ShannonPMarkielAOzierOBaligaNSWangJTRamageD, et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. Genome Res.2003; 13(11): 2498-504.
LiuMBanerjeeRRossaC, Jr.D’SilvaNJ. RAP1-RAC1 Signaling Has an Important Role in Adhesion and Migration in HNSCC. J Dent Res. 2020; 99(8): 959-68.
30.
JingCDuanYZhouMYueKZhuoSLiX, et al. Blockade of deubiquitinating enzyme PSMD14 overcomes chemoresistance in head and neck squamous cell carcinoma by antagonizing E2F1/Akt/SOX2-mediated stemness. Theranostics.2021; 11(6): 2655-69.
31.
ChoHYLeeSWJeonYHLeeDHKimGWYooJ, et al. Combination of ACY-241 and JQ1 Synergistically Suppresses Metastasis of HNSCC via Regulation of MMP-2 and MMP-9. Int J Mol Sci.2020; 21(18).
32.
ParkerWBAllanPWWaudWRHongJGilbert-RossMAchyutBR, et al. The use of Trichomonas vaginalis purine nucleoside phosphorylase to activate fludarabine in the treatment of solid tumors. Cancer Chemother Pharmacol.2020; 85(3): 573-83.
33.
YuXLiuWChenSChengXPaezPASunT, et al. Immunologically programming the tumor microenvironment induces the pattern recognition receptor NLRC4-dependent antitumor immunity. J Immunother Cancer.2021; 9(1).
34.
JiXDingFGaoJHuangXLiuWWangY, et al. Molecular and Clinical Characterization of a Novel Prognostic and Immunologic Biomarker FAM111A in Diffuse Lower-Grade Glioma. Front Oncol.2020; 10: 573800.
35.
FangDZhangCXuPLiuYMoXSunQ, et al. S100A16 promotes metastasis and progression of pancreatic cancer through FGF19-mediated AKT and ERK1/2 pathways. Cell Biol Toxicol.2021; 37(4): 555-71.
36.
PaysE. The function of apolipoproteins L (APOLs): relevance for kidney disease, neurotransmission disorders, cancer and viral infection. FEBS J.2021; 288(2): 360-81.
37.
LaiKCHongZXHsiehJGLeeHJYangMHHsiehCH, et al. IFIT2-depleted metastatic oral squamous cell carcinoma cells induce muscle atrophy and cancer cachexia in mice. J Cachexia Sarcopenia Muscle.2022; 13(2): 1314-28.
38.
LiYSunQJiangMLiSZhangJXuZ, et al. KLF9 suppresses gastric cancer cell invasion and metastasis through transcriptional inhibition of MMP28. FASEB J.2019; 33(7): 7915-28.
39.
WuDYangXPengHGuoDZhaoWZhaoC, et al. OCIAD2 suppressed tumor growth and invasion via AKT pathway in Hepatocelluar carcinoma. Carcinogenesis.2017; 38(9): 910-9.
40.
HaysAApteUHagenbuchB. Organic anion transporting polypeptides expressed in pancreatic cancer may serve as potential diagnostic markers and therapeutic targets for early stage adenocarcinomas. Pharm Res.2013; 30(9): 2260-9.
41.
ZhangKZhangLMiYTangYRenFLiuB, et al. A ceRNA network and a potential regulatory axis in gastric cancer with different degrees of immune cell infiltration. Cancer Sci.2020; 111(11): 4041-50.
42.
WangJZhaoXWangYRenFSunDYanY, et al. circRNA-002178 act as a ceRNA to promote PDL1/PD1 expression in lung adenocarcinoma. Cell Death Dis.2020; 11(1): 32.
43.
QianDZhengQWuDYeBQianYZhouT, et al. Integrated Analysis of ceRNA Network Reveals Prognostic and Metastasis Associated Biomarkers in Breast Cancer. Front Oncol.2021; 11: 670138.
44.
TianXZhengJLuoYWeiCMaJWangD, et al. Identification of abnormally methylated differentially expressed genes in chronic periodontitis by integrated bioinformatics analysis. Technol Health Care.2022.
45.
JiJLiXZhuYWangRYangSPengB, et al. Screening of periodontitis-related diagnostic biomarkers based on weighted gene correlation network analysis and machine algorithms. Technol Health Care.2022; 30(5): 1209-21.
46.
LiuXLiLXieXZhuangDHuC. Integrated bioinformatics analysis of microarray data from the GEO database to identify the candidate genes linked to poor prognosis in lung adenocarcinoma. Technol Health Care.2023; 31(2): 579-92.
47.
HanLZhengCWuS. Long non-coding RNA NEAT1 promotes the malignancy of laryngeal squamous cell carcinoma by regulating the microRNA-204-5p/SEMA4B axis. Oncol Lett.2021; 22(5): 802.
48.
WangPWuTZhouHJinQHeGYuH, et al. Long noncoding RNA NEAT1 promotes laryngeal squamous cell cancer through regulating miR-107/CDK6 pathway. J Exp Clin Cancer Res.2016; 35: 22.
49.
LuHKangF. Down-regulating NEAT1 inhibited the viability and vasculogenic mimicry formation of sinonasal squamous cell carcinoma cells via miR-195-5p/VEGFA axis. Biosci Rep.2020; 40(11).
50.
ParkMKZhangLMinKWChoJHYehCCMoonH, et al. NEAT1 is essential for metabolic changes that promote breast cancer growth and metastasis. Cell Metab.2021; 33(12): 2380-97 e9.
51.
WenSWeiYZenCXiongWNiuYZhaoY. Long non-coding RNA NEAT1 promotes bone metastasis of prostate cancer through N6-methyladenosine. Mol Cancer.2020; 19(1): 171.
52.
ZhangMWengWZhangQWuYNiSTanC, et al. The lncRNA NEAT1 activates Wnt/catenin? signaling and promotes colorectal cancer progression via interacting with DDX5. J Hematol Oncol. 2018; 11(1): 113.
53.
KayaSWiesmannNGoldschmittJKrügerMAl-NawasBHeiderJ. Differences in the expression of caveolin-1 isoforms in cancer-associated and normal fibroblasts of patients with oral squamous cell carcinoma. Clin Oral Investig.2021; 25(10): 5823-31.
54.
BurgyMJehlAConradOFoppoloSBrubanVEtienne-SelloumN, et al. Cav1/EREG/YAP Axis in the Treatment Resistance of Cav1-Expressing Head and Neck Squamous Cell Carcinoma. Cancers (Basel).2021; 13(12).
55.
ZhuGCaoBLiangXLiLHaoYMengW, et al. Small extracellular vesicles containing miR-192/215 mediate hypoxia-induced cancer-associated fibroblast development in head and neck squamous cell carcinoma. Cancer Lett.2021; 506: 11-22.
56.
LuTZhangZPanXZhangJWangXWangM, et al. Caveolin-1 promotes cancer progression via inhibiting ferroptosis in head and neck squamous cell carcinoma. J Oral Pathol Med.2022; 51(1): 52-62.
57.
SunJLuYYuCXuTNieGMiaoB, et al. Involvement of the TGF-β1 pathway in caveolin-1-associated regulation of head and neck tumor cell metastasis. Oncol Lett. 2020; 19(2): 1298-304.
58.
ChenXYanYLZengSSGongZCXuZJ. Caveolin-1 promotes radioresistance via IRGM-regulated autophagy in lung cancer. Ann Transl Med.2021; 9(1): 47.
59.
HuLXuXLiQChenXYuanXQiuS, et al. Caveolin-1 increases glycolysis in pancreatic cancer cells and triggers cachectic states. FASEB J.2021; 35(8): e21826.
60.
NgLWongSKHuangZLamCSChowAKFooDC, et al. CD26 Induces Colorectal Cancer Angiogenesis and Metastasis through CAV1/MMP1 Signaling. Int J Mol Sci.2022; 23(3).
61.
LaiKCLiuCJChangKWLeeTC. Depleting IFIT2 mediates atypical PKC signaling to enhance the migration and metastatic activity of oral squamous cell carcinoma cells. Oncogene.2013; 32(32): 3686-97.
62.
WangCWangQWengZ. LINC00664/miR-411-5p/KLF9 feedback loop contributes to the human oral squamous cell carcinoma progression. Oral Dis.2021.
63.
ShiZZhangHJieSYangXHuangQMaoY, et al. Long non-coding RNA SNHG8 promotes prostate cancer progression through repressing miR-384 and up-regulating HOXB7. J Gene Med.2021; 23(3): e3309.
LiuYShaoGYangZLinXLiuXQianB, et al. Interferon regulatory factor 6 correlates with the progression of non-small cell lung cancer and can be regulated by miR-320. J Pharm Pharmacol.2021; 73(5): 682-91.
66.
LiYZhangXYangZLiYHanBChenLA. miR-339-5p inhibits metastasis of non-small cell lung cancer by regulating the epithelial-to-mesenchymal transition. Oncol Lett.2018; 15(2): 2508-14.
67.
SchaidDJMcDonnellSKFitzGeraldLMDeRyckeLFogartyZGilesGG, et al. Two-stage Study of Familial Prostate Cancer by Whole-exome Sequencing and Custom Capture Identifies 10 Novel Genes Associated with the Risk of Prostate Cancer. Eur Urol.2021; 79(3): 353-61.
68.
ZhongZZhouFWangDWuMZhouWZouY, et al. Expression of KLF9 in pancreatic cancer and its effects on the invasion, migration, apoptosis, cell cycle distribution, and proliferation of pancreatic cancer cell lines. Oncol Rep.2018; 40(6): 3852-60.
69.
BarrowTMNakjangSLaftaFBilotkachKWoodhouseLJungeG, et al. Epigenome-wide analysis reveals functional modulators of drug sensitivity and post-treatment survival in chronic lymphocytic leukaemia. Br J Cancer.2021; 124(2): 474-83.
70.
DufresneJBowdenPThavarajahTFlorentinus-MefailoskiAChenZZTucholskaM, et al. The plasma peptides of breast versus ovarian cancer. Clin Proteomics.2019; 16: 43.
71.
HongJShiba-IshiiAKimYNoguchiMSakamotoN. Ovarian carcinoma immunoreactive antigen domain 2 controls mitochondrial apoptosis in lung adenocarcinoma. Cancer Sci.2021; 112(12): 5114-26.
72.
LvHHouHLeiHNieCChenBBieL, et al. MicroRNA-6884-5p Regulates the Proliferation, Invasion, and EMT of Gastric Cancer Cells by Directly Targeting S100A16. Oncol Res.2020; 28(3): 225-36.
73.
JiangYYuXZhaoYHuangJLiTChenH, et al. ADAMTS19 Suppresses Cell Migration and Invasion by Targeting S100A16 via the NF-κB Pathway in Human Gastric Cancer. Biomolecules.2021; 11(4).
