Journal of Otolaryngology and Ophthalmology of Shandong University ›› 2021, Vol. 35 ›› Issue (5): 75-84.doi: 10.6040/j.issn.1673-3770.0.2021.068

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Potential biomarkers and bioinformatics analysis of differentially expressed genes in recurrent laryngeal papilloma

QI Wenwen1, CHEN Luqiu2, JIA Tao1, CHEN Xuemei1, ZHANG Jie1, ZHANG Hao1, JIN Peng1, ZHANG Hu3   

  1. 1. Department of Otorhinolaryngology & Head and Neck Surgery, The Second Hospital, Cheeloo College of Medicine, Shandong University, Jinan 250033, Shandong, China;
    2. Department of Pediatric Surgery, Qilu Hospital, Cheeloo College of Medicine, Shandong University, Jinan 250012, Shandong, China;
    3. Department of Otolaryngology, Jinan Zhangqiu District People's Hospital, Jinan 250200, Shandong, China
  • Published:2021-09-29

Abstract: Objective This study aimed to provide new ideas or targets for recurrent laryngeal papilloma using bioinformatics. Methods The chip dataset GSE10935 was downloaded from the Gene Expression Omnibus(GEO)database, and the online analysis tool GEO2R was used to screen differentially expressed genes(DEGs)between recurrent laryngeal papilloma tissues and their adjacent normal laryngeal mucosal tissues. Gene ontology(GO)and Kyoto Encyclopedia of Genes and Genomes(KEGG)pathway enrichment analyses of the DEGs were performed using the online software Metascape. The STRING online software was used to analyze the protein interactions of the DEGs. Module analysis of the hub genes was performed using the Cytoscape software. Finally, the online transcription factor enrichment analysis database CHEA3 was used to predict the key transcription factors in recurrent laryngeal papilloma tissues. Results A total of 53 DEGs(|logFC|>1, adj P<0.05)including 30 upregulated and 23 down-regulated genes were screened from 10 pairs of recurrent laryngeal papilloma tissues and their adjacent normal laryngeal mucosal tissues. GO and KEGG pathway enrichment analyses suggested that these DEGs were mainly enriched in multiple metabolic processes, including immunomodulation and PPAR signaling pathways. SLC27A2, SCD, ECI2 and FADS2 were screened as the hub genes through protein-protein interaction network construction and module analysis. Further analysis revealed that TP63 was the most important transcription factor in recurrent laryngeal papilloma. Conclusion This study provides new ideas for in-depth understanding of the biological mechanism of recurrent laryngeal papilloma and exploring effective treatment for recurrent laryngeal papilloma.

Key words: Laryngeal papilloma, Recurrent, Differentially expressed genes, Bioinformatics analysis

CLC Number: 

  • R767.1
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[1] NIU Zijie, XIAO YangOverview,WANG Jun,MA LijinngGuidance. Progress in the surgical treatment of recurrent laryngeal papillomatosis [J]. Journal of Otolaryngology and Ophthalmology of Shandong University, 2021, 35(4): 96-100.
[2] YAN Jing, REN Xiaoyong, XIANG Li, DU Xiaoying, LI Na, LIU Xiaohong, HOU Jin. Preliminary observation of the immediate curative effect of unilateral idiopathic vocal cord palsy after electrical stimulation of the nerve [J]. Journal of Otolaryngology and Ophthalmology of Shandong University, 2021, 35(3): 42-46.
[3] This study aimed to compare the abnormality rate of vestibular evoked myogenic potentials(VEMPs)in patients with primary and recurrent benign paroxysmal positional vertigo(BPPV)and test the hypothesis that otolith dysfunction causes the recurrence of BPPV. MethodsCervical VEMP(cVEMP)and ocular VEMP(oVEMP)tests using air-conducted 500 Hz tone-burst stimuli were performed on 57 patients with unilateral primary BPPV(n=36)and recurrent BPPV(n=21)between June 2019 and May 2020. Abnormalities in cVEMP and oVEMP were compared between the primary and recurrent BPPV groups. Results(1) The differences in sex, the involved side, and canal between the primary and recurrent BPPV groups were not significant; however, the difference was statistically significant in terms of age; (2) Of the 57 BPPV patients, cVEMP or oVEMP was not elicited in 21 cases(36.84%)and 35 cases(61.40%), respectively. The abnormality rate of oVEMP was much higher(P<0.05); (3)Abnormal cVEMP was observed in 16 of 36(44.45%)and 5 of 21(23.81%)cases in the primary and recurrent BPPV groups, respectively. Abnormal oVMEP was observed in 19 of 36(52.79%)and 16 in 21(76.19%)patients in the primary and recurrent BPPV groups, respectively. Differences in the abnormality rates of cVMEP and oVMEP were not found between the primary and recurrent BPPV groups(P>0.05); (4) When the recurrent BPPV group was further divided into 2-times groups and ≥3-times group according to the recurrent frequency, there were also no statistical differences in the VEMP abnormality rate in these three groups(P>0.05). ConclusionThe results showed no significant difference in the abnormality rate of cVEMP and oVEMP between the primary BPPV and recurrent BPPV groups, indicating that the possible recurrent mechanism of primary BPPV still needs to be further studied.. Abnormality rate of vestibular evoked myogenic potentials in patients with primary and recurrent benign paroxysmal positional vertigo: a clinical observation [J]. Journal of Otolaryngology and Ophthalmology of Shandong University, 2020, 34(5): 51-55.
[4] ObjectiveThe aim of this study was to provide new perspectives and targets for the treatment of HNSCC by screening differentially expressed genes during cetuximab treatment of head and neck squamous cell carcinoma(HNSCC)using bioinformatics. MethodsThe chip dataset, GSE109756, was downloaded from the GEO database, and the online analysis tool, GEO2R, was used to screen differentially expressed genes in head and neck squamous cell carcinoma tissues treated with and without cetuximab. The DAVID 6.8 and STRING online software were used to analyze the function of the differentially expressed genes, their pathway enrichment, and their protein interactions. Cytoscape was used to visualize and analyze the protein interactions. The online analysis tool, X2K, was used to find the transcription factors, the kinases of differentially expressed genes, and their mutual regulatory relationship with the targeted genes. ResultsNinety-one differentially expressed genes, including 50 up-regulated and 41 down-regulated genes(P<0.05; | logFC | > 1), were found in head and neck squamous cell carcinoma tissues treated with and without cetuximab. The GO and KEGG pathway analyses suggested that these differentially expressed genes were mainly enriched with immunomodulation, extracellular matrix, and other processes. Through the construction of a protein-protein interaction network, we screened CD163, VSIG4, and 3 other core differentially expressed genes(P<0.05), which were up-regulated after cetuximab treatment. In addition, our analysis shows that transcription factors, including SUZ12, TP63, and ESR1, played a key role in cetuximab treatment(P<0.05)and MAPK14, CDK1, and MAPK1 were the most important kinases during the process(P<0.05). ConclusionCD163, VSIG4, and the aforementioned transcription factors and protein kinases may be involved in the biological processes that underlie cetuximab treatment of HNSCC. This study provides new perspectives to facilitate further understanding of the biological mechanism that underlies cetuximab treatment of HNSCC and the exploration of the effectiveness of HNSCC treatment.. Analysis of differentially expressed genes during cetuximab treatment of head and neck squamous cell carcinoma using bioinformaticsYU Kena1, SUN Kaiyue2, ZHANG Jie1, JIN Peng1 1. Department of Otorhinolaryngology & Head and Neck Surgery, The Second Hospital of Shandong University, Jinan 250033, Shandong, China; 2. Shandong Provincial Otorhinolaryngology Hospital, Cheeloo College of Medicine, Shandong University, Jinan 250022, Shandong, ChinaAbstract: [J]. Journal of Otolaryngology and Ophthalmology of Shandong University, 2020, 34(4): 117-124.
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