Construction of lncRNA-m6A gene-mRNA regulatory network to identify m6A-related lncRNAs associated with the progression of lung adenocarcinoma
Abstract Background We evaluated the prognostic value of m6A-related long noncoding RNAs (lncRNAs) in lung adenocarcinoma (LUAD). Methods The expression levels of lncRNAs and mRNAs in LUAD and normal adjacent tissues from The Cancer Genome Atlas dataset were analyzed using the limma package. m6A enz...
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| Format: | Article |
| Language: | English |
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BMC
2023-08-01
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| Series: | BMC Pulmonary Medicine |
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| Online Access: | https://doi.org/10.1186/s12890-023-02545-x |
| _version_ | 1797578429816635392 |
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| author | Jiangzhou Zhang Shuheng Bai Yanli Yan Haojing Kang Guangzu Li Zhaode Feng Wen Ma Xuan Wang Juan Ren |
| author_facet | Jiangzhou Zhang Shuheng Bai Yanli Yan Haojing Kang Guangzu Li Zhaode Feng Wen Ma Xuan Wang Juan Ren |
| author_sort | Jiangzhou Zhang |
| collection | DOAJ |
| description | Abstract Background We evaluated the prognostic value of m6A-related long noncoding RNAs (lncRNAs) in lung adenocarcinoma (LUAD). Methods The expression levels of lncRNAs and mRNAs in LUAD and normal adjacent tissues from The Cancer Genome Atlas dataset were analyzed using the limma package. m6A enzyme-related differentially expressed lncRNAs and mRNAs were identified and used to construct a regulatory network. Survival analysis was performed and the correlation between lncRNAs, m6A regulators, and mRNAs was analyzed; followed by functional enrichment analysis. Results A comparison of LUAD samples and normal tissues identified numerous differentially expressed lncRNAs and mRNAs, demonstrating that a comprehensive network was established. Two lncRNAs and six mRNAs were selected as prognosis related factors including SH3PXD2A-AS1, MAD2L1, CCNA2, and CDC25C. The pathological stage and recurrence status were identified as independent clinical factors (P < 0.05). The expression levels of these RNAs in the different clinical groups were consistent with those in the different risk groups. The interactions of m6A proteins, two lncRNAs, and six mRNAs were predicted, and functional analysis showed that m6A target mRNAs were involved in the cell cycle, progesterone-mediated oocyte maturation, and oocyte meiosis pathways. Conclusions These m6A target lncRNAs and mRNAs may be promising biomarkers for predicting clinical prognosis, and the lncRNA-m6A regulator-mRNA regulatory network could improve our understanding of m6A modification in LUAD progression. |
| first_indexed | 2024-03-10T22:22:46Z |
| format | Article |
| id | doaj.art-f5f9e77a215544aa9452adb2d281bb0e |
| institution | Directory Open Access Journal |
| issn | 1471-2466 |
| language | English |
| last_indexed | 2024-03-10T22:22:46Z |
| publishDate | 2023-08-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Pulmonary Medicine |
| spelling | doaj.art-f5f9e77a215544aa9452adb2d281bb0e2023-11-19T12:15:01ZengBMCBMC Pulmonary Medicine1471-24662023-08-0123111310.1186/s12890-023-02545-xConstruction of lncRNA-m6A gene-mRNA regulatory network to identify m6A-related lncRNAs associated with the progression of lung adenocarcinomaJiangzhou Zhang0Shuheng Bai1Yanli Yan2Haojing Kang3Guangzu Li4Zhaode Feng5Wen Ma6Xuan Wang7Juan Ren8Department of Oncology Radiotherapy, First Affiliated Hospital of Xi’an Jiaotong UniversityDepartment of Oncology Radiotherapy, First Affiliated Hospital of Xi’an Jiaotong UniversityDepartment of Oncology Radiotherapy, First Affiliated Hospital of Xi’an Jiaotong UniversityDepartment of Oncology Radiotherapy, First Affiliated Hospital of Xi’an Jiaotong UniversityDepartment of Oncology Radiotherapy, First Affiliated Hospital of Xi’an Jiaotong UniversityDepartment of Oncology Radiotherapy, First Affiliated Hospital of Xi’an Jiaotong UniversityDepartment of Oncology Radiotherapy, First Affiliated Hospital of Xi’an Jiaotong UniversityDepartment of Oncology Radiotherapy, First Affiliated Hospital of Xi’an Jiaotong UniversityDepartment of Oncology Radiotherapy, First Affiliated Hospital of Xi’an Jiaotong UniversityAbstract Background We evaluated the prognostic value of m6A-related long noncoding RNAs (lncRNAs) in lung adenocarcinoma (LUAD). Methods The expression levels of lncRNAs and mRNAs in LUAD and normal adjacent tissues from The Cancer Genome Atlas dataset were analyzed using the limma package. m6A enzyme-related differentially expressed lncRNAs and mRNAs were identified and used to construct a regulatory network. Survival analysis was performed and the correlation between lncRNAs, m6A regulators, and mRNAs was analyzed; followed by functional enrichment analysis. Results A comparison of LUAD samples and normal tissues identified numerous differentially expressed lncRNAs and mRNAs, demonstrating that a comprehensive network was established. Two lncRNAs and six mRNAs were selected as prognosis related factors including SH3PXD2A-AS1, MAD2L1, CCNA2, and CDC25C. The pathological stage and recurrence status were identified as independent clinical factors (P < 0.05). The expression levels of these RNAs in the different clinical groups were consistent with those in the different risk groups. The interactions of m6A proteins, two lncRNAs, and six mRNAs were predicted, and functional analysis showed that m6A target mRNAs were involved in the cell cycle, progesterone-mediated oocyte maturation, and oocyte meiosis pathways. Conclusions These m6A target lncRNAs and mRNAs may be promising biomarkers for predicting clinical prognosis, and the lncRNA-m6A regulator-mRNA regulatory network could improve our understanding of m6A modification in LUAD progression.https://doi.org/10.1186/s12890-023-02545-xLung adenocarcinomaN6-MethyladenosinelncRNAPrognosis markers |
| spellingShingle | Jiangzhou Zhang Shuheng Bai Yanli Yan Haojing Kang Guangzu Li Zhaode Feng Wen Ma Xuan Wang Juan Ren Construction of lncRNA-m6A gene-mRNA regulatory network to identify m6A-related lncRNAs associated with the progression of lung adenocarcinoma BMC Pulmonary Medicine Lung adenocarcinoma N6-Methyladenosine lncRNA Prognosis markers |
| title | Construction of lncRNA-m6A gene-mRNA regulatory network to identify m6A-related lncRNAs associated with the progression of lung adenocarcinoma |
| title_full | Construction of lncRNA-m6A gene-mRNA regulatory network to identify m6A-related lncRNAs associated with the progression of lung adenocarcinoma |
| title_fullStr | Construction of lncRNA-m6A gene-mRNA regulatory network to identify m6A-related lncRNAs associated with the progression of lung adenocarcinoma |
| title_full_unstemmed | Construction of lncRNA-m6A gene-mRNA regulatory network to identify m6A-related lncRNAs associated with the progression of lung adenocarcinoma |
| title_short | Construction of lncRNA-m6A gene-mRNA regulatory network to identify m6A-related lncRNAs associated with the progression of lung adenocarcinoma |
| title_sort | construction of lncrna m6a gene mrna regulatory network to identify m6a related lncrnas associated with the progression of lung adenocarcinoma |
| topic | Lung adenocarcinoma N6-Methyladenosine lncRNA Prognosis markers |
| url | https://doi.org/10.1186/s12890-023-02545-x |
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