Comprehensive analysis reveals hub genes associated with immune cell infiltration in allergic rhinitis
Abstract Objectives Allergic rhinitis (AR) refers to a form of respiratory inflammation that mainly affects the sinonasal mucosa. The purpose of this study was to explore the level of immune cell infiltration and the pathogenesis of AR. Methods We performed a comprehensive analysis of two gene expre...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Wiley
2023-12-01
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| Series: | World Journal of Otorhinolaryngology-Head and Neck Surgery |
| Subjects: | |
| Online Access: | https://doi.org/10.1002/wjo2.92 |
| _version_ | 1797404495641051136 |
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| author | Hui Li Shi‐En Huang Cong‐Li Geng Yu‐Xiao Wu Mu‐Han Shi Min Wang |
| author_facet | Hui Li Shi‐En Huang Cong‐Li Geng Yu‐Xiao Wu Mu‐Han Shi Min Wang |
| author_sort | Hui Li |
| collection | DOAJ |
| description | Abstract Objectives Allergic rhinitis (AR) refers to a form of respiratory inflammation that mainly affects the sinonasal mucosa. The purpose of this study was to explore the level of immune cell infiltration and the pathogenesis of AR. Methods We performed a comprehensive analysis of two gene expression profiles (GSE50223 and GSE50101, a total of 30 patients with AR and 31 healthy controls). CIBERSORT was used to evaluate the immune cell infiltration levels. Weighted gene coexpression network analysis was applied to explore potential genes or gene modules related to immune status, and enrichment analyses including gene ontology, Kyoto Encyclopedia of Genes and Genomes, gene set enrichment analysis, and gene set variation analysis, were performed to analyze the potential mechanisms in AR. A protein–protein interaction network was constructed to investigate the hub genes, and consensus clustering was conducted to identify the molecular subtypes of AR. Results Compared to the healthy controls, patients with AR had high abundance levels and proportions of CD4+ memory‐activated T cells. One hundred and eight immune‐related differentially expressed genes were identified. Enrichment analysis suggested that AR was mainly related to leukocyte cell‐cell adhesion, cytokine‐cytokine receptor interaction, T‐cell activation, and T‐cell receptor signaling pathway. Ten hub genes, including TYROBP, CSF1R, TLR8, FCER1G, SPI1, ITGAM, CYBB, FCGR2A, CCR1, and HCK, which were related to immune response, might be crucial to the pathogenesis of AR. Three molecular subtypes with significantly different immune statuses were identified. Conclusion This study improves our understanding of the molecular mechanisms in AR via comprehensive strategies and provides potential diagnostic biomarkers and therapeutic targets of AR. |
| first_indexed | 2024-03-09T02:55:49Z |
| format | Article |
| id | doaj.art-2a2ae322353f46fdb6eec839fce21d71 |
| institution | Directory Open Access Journal |
| issn | 2095-8811 2589-1081 |
| language | English |
| last_indexed | 2024-03-09T02:55:49Z |
| publishDate | 2023-12-01 |
| publisher | Wiley |
| record_format | Article |
| series | World Journal of Otorhinolaryngology-Head and Neck Surgery |
| spelling | doaj.art-2a2ae322353f46fdb6eec839fce21d712023-12-05T06:26:41ZengWileyWorld Journal of Otorhinolaryngology-Head and Neck Surgery2095-88112589-10812023-12-019434035110.1002/wjo2.92Comprehensive analysis reveals hub genes associated with immune cell infiltration in allergic rhinitisHui Li0Shi‐En Huang1Cong‐Li Geng2Yu‐Xiao Wu3Mu‐Han Shi4Min Wang5Department of Otorhinolaryngology Peking University People's Hospital Beijing ChinaDepartment of Otorhinolaryngology Peking University People's Hospital Beijing ChinaDepartment of Otorhinolaryngology Peking University People's Hospital Beijing ChinaDepartment of Otorhinolaryngology Peking University People's Hospital Beijing ChinaDepartment of Otorhinolaryngology Peking University People's Hospital Beijing ChinaDepartment of Otorhinolaryngology Peking University People's Hospital Beijing ChinaAbstract Objectives Allergic rhinitis (AR) refers to a form of respiratory inflammation that mainly affects the sinonasal mucosa. The purpose of this study was to explore the level of immune cell infiltration and the pathogenesis of AR. Methods We performed a comprehensive analysis of two gene expression profiles (GSE50223 and GSE50101, a total of 30 patients with AR and 31 healthy controls). CIBERSORT was used to evaluate the immune cell infiltration levels. Weighted gene coexpression network analysis was applied to explore potential genes or gene modules related to immune status, and enrichment analyses including gene ontology, Kyoto Encyclopedia of Genes and Genomes, gene set enrichment analysis, and gene set variation analysis, were performed to analyze the potential mechanisms in AR. A protein–protein interaction network was constructed to investigate the hub genes, and consensus clustering was conducted to identify the molecular subtypes of AR. Results Compared to the healthy controls, patients with AR had high abundance levels and proportions of CD4+ memory‐activated T cells. One hundred and eight immune‐related differentially expressed genes were identified. Enrichment analysis suggested that AR was mainly related to leukocyte cell‐cell adhesion, cytokine‐cytokine receptor interaction, T‐cell activation, and T‐cell receptor signaling pathway. Ten hub genes, including TYROBP, CSF1R, TLR8, FCER1G, SPI1, ITGAM, CYBB, FCGR2A, CCR1, and HCK, which were related to immune response, might be crucial to the pathogenesis of AR. Three molecular subtypes with significantly different immune statuses were identified. Conclusion This study improves our understanding of the molecular mechanisms in AR via comprehensive strategies and provides potential diagnostic biomarkers and therapeutic targets of AR.https://doi.org/10.1002/wjo2.92allergic rhinitisCIBERSORTconsensus clusterGSEAGSVAimmune cell infiltration |
| spellingShingle | Hui Li Shi‐En Huang Cong‐Li Geng Yu‐Xiao Wu Mu‐Han Shi Min Wang Comprehensive analysis reveals hub genes associated with immune cell infiltration in allergic rhinitis World Journal of Otorhinolaryngology-Head and Neck Surgery allergic rhinitis CIBERSORT consensus cluster GSEA GSVA immune cell infiltration |
| title | Comprehensive analysis reveals hub genes associated with immune cell infiltration in allergic rhinitis |
| title_full | Comprehensive analysis reveals hub genes associated with immune cell infiltration in allergic rhinitis |
| title_fullStr | Comprehensive analysis reveals hub genes associated with immune cell infiltration in allergic rhinitis |
| title_full_unstemmed | Comprehensive analysis reveals hub genes associated with immune cell infiltration in allergic rhinitis |
| title_short | Comprehensive analysis reveals hub genes associated with immune cell infiltration in allergic rhinitis |
| title_sort | comprehensive analysis reveals hub genes associated with immune cell infiltration in allergic rhinitis |
| topic | allergic rhinitis CIBERSORT consensus cluster GSEA GSVA immune cell infiltration |
| url | https://doi.org/10.1002/wjo2.92 |
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