Identifying common signatures and potential therapeutic biomarkers in COPD and lung cancer using miRNA-mRNA co-expression networks
The association between non-small cell lung cancer (NSCLC) and chronic obstructive pulmonary disease (COPD) is now well established, as people with COPD are more likely to develop lung carcinoma. However, the evidence for this relationship is inconclusive and there is currently little information on...
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| Format: | Article |
| Language: | English |
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Elsevier
2022-01-01
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| Series: | Informatics in Medicine Unlocked |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2352914822002520 |
| _version_ | 1811231073213874176 |
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| author | Amirhossein Fathinavid Zaynab Mousavian Ali Najafi Sajjad Nematzadeh Mahdieh Salimi Ali Masoudi-Nejad |
| author_facet | Amirhossein Fathinavid Zaynab Mousavian Ali Najafi Sajjad Nematzadeh Mahdieh Salimi Ali Masoudi-Nejad |
| author_sort | Amirhossein Fathinavid |
| collection | DOAJ |
| description | The association between non-small cell lung cancer (NSCLC) and chronic obstructive pulmonary disease (COPD) is now well established, as people with COPD are more likely to develop lung carcinoma. However, the evidence for this relationship is inconclusive and there is currently little information on the underlying molecular mechanisms. MicroRNAs (miRNAs) are one of the regulatory factors in NSCLC and COPD that their functions are widely studied in many chronic diseases and cancers. In this study, we applied systems biology approaches to identify and predict miRNAs that potentially play regulatory roles between COPD and NSCLC. We performed differential expression analysis on public miRNA and mRNA expression datasets, for both of diseases, and then we reconstructed two miRNA-mRNA co-expression networks and merged these two co-expression networks into a community co-expression network. Results indicated the existence of very common miRNAs (ex. hsa-miR-326 and hsa-miR-1293) and mRNAs (such as FAT2, ALOX5AP, and LDB2) between the two mentioned diseases. Moreover, we discovered specific miRNAs (hsa-miR-574-3p) that targeted common mRNAs. We utilized drug-target interaction networks to identify candidate drugs for common mRNAs, which can be considered in the treatment of two diseases (e.g. iloperidone). Generally, our study highlighted common miRNAs between COPD and NSCLC that as new signatures or biomarkers for therapeutic purposes. Investigating the miRNA biomarkers in this study improves our understanding about the shared mechanisms between COPD and NSCLC. |
| first_indexed | 2024-04-12T10:40:05Z |
| format | Article |
| id | doaj.art-33d8c903412e42b8a51d25c6ae4a3dba |
| institution | Directory Open Access Journal |
| issn | 2352-9148 |
| language | English |
| last_indexed | 2024-04-12T10:40:05Z |
| publishDate | 2022-01-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Informatics in Medicine Unlocked |
| spelling | doaj.art-33d8c903412e42b8a51d25c6ae4a3dba2022-12-22T03:36:38ZengElsevierInformatics in Medicine Unlocked2352-91482022-01-0134101115Identifying common signatures and potential therapeutic biomarkers in COPD and lung cancer using miRNA-mRNA co-expression networksAmirhossein Fathinavid0Zaynab Mousavian1Ali Najafi2Sajjad Nematzadeh3Mahdieh Salimi4Ali Masoudi-Nejad5Department of Computer Engineering, College of Engineering, Hamedan Branch, Islamic Azad University, Hamedan, Iran; Laboratory of Systems Biology and Bioinformatics (LBB), Institute of Biochemistry and Biophysics, University of Tehran, Tehran, IranDepartment of Computer Science, School of Mathematics, Statistics, and Computer Science, University of Tehran, Tehran, IranMolecular Biology Research Center, System Biology and Poisoning Institute, Tehran, IranComputer Engineering Department, Architecture and Engineering Faculty, Nisantasi University, Istanbul, TurkeyDepartment of Medical Genetics, Institute of Medical Biotechnology, National Institute of Genetic Engineering and Biotechnology (NIGEB), Tehran, IranLaboratory of Systems Biology and Bioinformatics (LBB), Institute of Biochemistry and Biophysics, University of Tehran, Tehran, Iran; Corresponding author.The association between non-small cell lung cancer (NSCLC) and chronic obstructive pulmonary disease (COPD) is now well established, as people with COPD are more likely to develop lung carcinoma. However, the evidence for this relationship is inconclusive and there is currently little information on the underlying molecular mechanisms. MicroRNAs (miRNAs) are one of the regulatory factors in NSCLC and COPD that their functions are widely studied in many chronic diseases and cancers. In this study, we applied systems biology approaches to identify and predict miRNAs that potentially play regulatory roles between COPD and NSCLC. We performed differential expression analysis on public miRNA and mRNA expression datasets, for both of diseases, and then we reconstructed two miRNA-mRNA co-expression networks and merged these two co-expression networks into a community co-expression network. Results indicated the existence of very common miRNAs (ex. hsa-miR-326 and hsa-miR-1293) and mRNAs (such as FAT2, ALOX5AP, and LDB2) between the two mentioned diseases. Moreover, we discovered specific miRNAs (hsa-miR-574-3p) that targeted common mRNAs. We utilized drug-target interaction networks to identify candidate drugs for common mRNAs, which can be considered in the treatment of two diseases (e.g. iloperidone). Generally, our study highlighted common miRNAs between COPD and NSCLC that as new signatures or biomarkers for therapeutic purposes. Investigating the miRNA biomarkers in this study improves our understanding about the shared mechanisms between COPD and NSCLC.http://www.sciencedirect.com/science/article/pii/S2352914822002520COPDNon-small cell lung cancermiRNA-mRNA networkCo-expression networksCommunity networks |
| spellingShingle | Amirhossein Fathinavid Zaynab Mousavian Ali Najafi Sajjad Nematzadeh Mahdieh Salimi Ali Masoudi-Nejad Identifying common signatures and potential therapeutic biomarkers in COPD and lung cancer using miRNA-mRNA co-expression networks Informatics in Medicine Unlocked COPD Non-small cell lung cancer miRNA-mRNA network Co-expression networks Community networks |
| title | Identifying common signatures and potential therapeutic biomarkers in COPD and lung cancer using miRNA-mRNA co-expression networks |
| title_full | Identifying common signatures and potential therapeutic biomarkers in COPD and lung cancer using miRNA-mRNA co-expression networks |
| title_fullStr | Identifying common signatures and potential therapeutic biomarkers in COPD and lung cancer using miRNA-mRNA co-expression networks |
| title_full_unstemmed | Identifying common signatures and potential therapeutic biomarkers in COPD and lung cancer using miRNA-mRNA co-expression networks |
| title_short | Identifying common signatures and potential therapeutic biomarkers in COPD and lung cancer using miRNA-mRNA co-expression networks |
| title_sort | identifying common signatures and potential therapeutic biomarkers in copd and lung cancer using mirna mrna co expression networks |
| topic | COPD Non-small cell lung cancer miRNA-mRNA network Co-expression networks Community networks |
| url | http://www.sciencedirect.com/science/article/pii/S2352914822002520 |
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