Analysis of ceRNA Regulatory Mechanism of Rape Pollen Allergy Based on Whole-Transcriptome Sequencing of Peripheral Blood Mononuclear Cells
Ya Wang,1 Jianhua Li,2 Fang Wang,1 Yunhua Cui,1 Li Song,1 Biao Ruan,1 Yongmei Yu1 1Department of Otolaryngology, the First Affiliated Hospital of Kunming Medical University, Kunming, People’s Republic of China; 2Department of Otolaryngology, the Sixth Affiliated Hospital of Kunming Medical Universit...
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| Format: | Article |
| Language: | English |
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Dove Medical Press
2023-07-01
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| Series: | Journal of Asthma and Allergy |
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| Online Access: | https://www.dovepress.com/analysis-of-cerna-regulatory-mechanism-of-rape-pollen-allergy-based-on-peer-reviewed-fulltext-article-JAA |
| _version_ | 1797771001825591296 |
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| author | Wang Y Li J Wang F Cui Y Song L Ruan B Yu Y |
| author_facet | Wang Y Li J Wang F Cui Y Song L Ruan B Yu Y |
| author_sort | Wang Y |
| collection | DOAJ |
| description | Ya Wang,1 Jianhua Li,2 Fang Wang,1 Yunhua Cui,1 Li Song,1 Biao Ruan,1 Yongmei Yu1 1Department of Otolaryngology, the First Affiliated Hospital of Kunming Medical University, Kunming, People’s Republic of China; 2Department of Otolaryngology, the Sixth Affiliated Hospital of Kunming Medical University, Yuxi, People’s Republic of ChinaCorrespondence: Yongmei Yu, Email yuyongmei@kmmu.edu.cnBackground: Rape pollen allergy is a common allergic reaction disorder that affects the health and life of patients seriously. The research on ceRNA regulatory network in rape pollen allergy is poor.Methods: High throughput whole-transcriptome sequencing was conducted on rape pollen allergic samples and non-allergic samples. Differentially expressed microRNAs (DEmiRNAs), circRNAs (DEcircRNAs), long non-coding RNA (DElncRNAs), mRNA (DEmRNAs) were identified and a ceRNA regulatory network was constructed by Cytoscape. Functional enrichment analyses were performed on DEmRNAs in the ceRNA network. Then, the least absolute shrinkage and selection operator (LASSO) regression model was used to identify characteristic genes for rape pollen allergy. The receiver operating characteristic (ROC) curve was used to evaluate the diagnostic ability of characteristic genes.Results: A total of 25 DEmiRNAs, 258 DEcircRNAs, 304 DElncRNAs, and 383 DEmRNAs in the allergic group compared with the non-allergic group were uncovered, respectively. A ceRNA network containing 21 miRNAs, 57 circRNAs, 28 lncRNAs, and 33 mRNAs was generated with 139 nodes and 160 edges. The signal transduction-related processes, immune-related processes, the ion, inorganic substance, and hormone regulation processes were associated with mRNAs in the ceRNA network. The results of pathway enrichment illustrated that mRNAs in the ceRNA were significantly linked to IL-17 signaling pathway, inflammatory mediator regulation of trp channels, GMP-PKG signaling pathway, signaling by GPCR, and GPCR downstream signaling pathway. Then, five characteristic genes (KCNQ3, CCR5, FOSB, CFAP43, and PRKG1) were defined by the LASSO algorithm. The AUC values of these genes indicated that these genes had a powerful discrimination ability in discriminating allergic samples from non-allergic samples.Conclusion: Taken together, we revealed the ceRNA regulatory network in rape pollen allergy and excavated five characteristic genes (KCNQ3, CCR5, FOSB, CFAP43, and PRKG1) with the diagnostic value that may be a potential target in diagnosis and treatment.Keywords: rape pollen allergy, ceRNA, characteristic genes, GO, KEGG, IPA |
| first_indexed | 2024-03-12T21:31:12Z |
| format | Article |
| id | doaj.art-11bfb0526e5e49a5b95b6d8156aa061d |
| institution | Directory Open Access Journal |
| issn | 1178-6965 |
| language | English |
| last_indexed | 2024-03-12T21:31:12Z |
| publishDate | 2023-07-01 |
| publisher | Dove Medical Press |
| record_format | Article |
| series | Journal of Asthma and Allergy |
| spelling | doaj.art-11bfb0526e5e49a5b95b6d8156aa061d2023-07-27T19:14:33ZengDove Medical PressJournal of Asthma and Allergy1178-69652023-07-01Volume 1677578885484Analysis of ceRNA Regulatory Mechanism of Rape Pollen Allergy Based on Whole-Transcriptome Sequencing of Peripheral Blood Mononuclear CellsWang YLi JWang FCui YSong LRuan BYu YYa Wang,1 Jianhua Li,2 Fang Wang,1 Yunhua Cui,1 Li Song,1 Biao Ruan,1 Yongmei Yu1 1Department of Otolaryngology, the First Affiliated Hospital of Kunming Medical University, Kunming, People’s Republic of China; 2Department of Otolaryngology, the Sixth Affiliated Hospital of Kunming Medical University, Yuxi, People’s Republic of ChinaCorrespondence: Yongmei Yu, Email yuyongmei@kmmu.edu.cnBackground: Rape pollen allergy is a common allergic reaction disorder that affects the health and life of patients seriously. The research on ceRNA regulatory network in rape pollen allergy is poor.Methods: High throughput whole-transcriptome sequencing was conducted on rape pollen allergic samples and non-allergic samples. Differentially expressed microRNAs (DEmiRNAs), circRNAs (DEcircRNAs), long non-coding RNA (DElncRNAs), mRNA (DEmRNAs) were identified and a ceRNA regulatory network was constructed by Cytoscape. Functional enrichment analyses were performed on DEmRNAs in the ceRNA network. Then, the least absolute shrinkage and selection operator (LASSO) regression model was used to identify characteristic genes for rape pollen allergy. The receiver operating characteristic (ROC) curve was used to evaluate the diagnostic ability of characteristic genes.Results: A total of 25 DEmiRNAs, 258 DEcircRNAs, 304 DElncRNAs, and 383 DEmRNAs in the allergic group compared with the non-allergic group were uncovered, respectively. A ceRNA network containing 21 miRNAs, 57 circRNAs, 28 lncRNAs, and 33 mRNAs was generated with 139 nodes and 160 edges. The signal transduction-related processes, immune-related processes, the ion, inorganic substance, and hormone regulation processes were associated with mRNAs in the ceRNA network. The results of pathway enrichment illustrated that mRNAs in the ceRNA were significantly linked to IL-17 signaling pathway, inflammatory mediator regulation of trp channels, GMP-PKG signaling pathway, signaling by GPCR, and GPCR downstream signaling pathway. Then, five characteristic genes (KCNQ3, CCR5, FOSB, CFAP43, and PRKG1) were defined by the LASSO algorithm. The AUC values of these genes indicated that these genes had a powerful discrimination ability in discriminating allergic samples from non-allergic samples.Conclusion: Taken together, we revealed the ceRNA regulatory network in rape pollen allergy and excavated five characteristic genes (KCNQ3, CCR5, FOSB, CFAP43, and PRKG1) with the diagnostic value that may be a potential target in diagnosis and treatment.Keywords: rape pollen allergy, ceRNA, characteristic genes, GO, KEGG, IPAhttps://www.dovepress.com/analysis-of-cerna-regulatory-mechanism-of-rape-pollen-allergy-based-on-peer-reviewed-fulltext-article-JAArape pollen allergycernacharacteristic genesgokeggipa |
| spellingShingle | Wang Y Li J Wang F Cui Y Song L Ruan B Yu Y Analysis of ceRNA Regulatory Mechanism of Rape Pollen Allergy Based on Whole-Transcriptome Sequencing of Peripheral Blood Mononuclear Cells Journal of Asthma and Allergy rape pollen allergy cerna characteristic genes go kegg ipa |
| title | Analysis of ceRNA Regulatory Mechanism of Rape Pollen Allergy Based on Whole-Transcriptome Sequencing of Peripheral Blood Mononuclear Cells |
| title_full | Analysis of ceRNA Regulatory Mechanism of Rape Pollen Allergy Based on Whole-Transcriptome Sequencing of Peripheral Blood Mononuclear Cells |
| title_fullStr | Analysis of ceRNA Regulatory Mechanism of Rape Pollen Allergy Based on Whole-Transcriptome Sequencing of Peripheral Blood Mononuclear Cells |
| title_full_unstemmed | Analysis of ceRNA Regulatory Mechanism of Rape Pollen Allergy Based on Whole-Transcriptome Sequencing of Peripheral Blood Mononuclear Cells |
| title_short | Analysis of ceRNA Regulatory Mechanism of Rape Pollen Allergy Based on Whole-Transcriptome Sequencing of Peripheral Blood Mononuclear Cells |
| title_sort | analysis of cerna regulatory mechanism of rape pollen allergy based on whole transcriptome sequencing of peripheral blood mononuclear cells |
| topic | rape pollen allergy cerna characteristic genes go kegg ipa |
| url | https://www.dovepress.com/analysis-of-cerna-regulatory-mechanism-of-rape-pollen-allergy-based-on-peer-reviewed-fulltext-article-JAA |
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