Long non-coding RNA-associated competing endogenous RNA axes in the olfactory epithelium in schizophrenia: a bioinformatics analysis
Abstract The etiology of schizophrenia (SCZ), as a serious mental illness, is unknown. The significance of genetics in SCZ pathophysiology is yet unknown, and newly identified mechanisms involved in the regulation of gene transcription may be helpful in determining how these changes affect SCZ devel...
| Main Authors: | , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2021-12-01
|
| Series: | Scientific Reports |
| Online Access: | https://doi.org/10.1038/s41598-021-04326-0 |
| _version_ | 1819094928152592384 |
|---|---|
| author | Hani Sabaie Marziyeh Mazaheri Moghaddam Madiheh Mazaheri Moghaddam Nazanin Amirinejad Mohammad Reza Asadi Yousef Daneshmandpour Bashdar Mahmud Hussen Mohammad Taheri Maryam Rezazadeh |
| author_facet | Hani Sabaie Marziyeh Mazaheri Moghaddam Madiheh Mazaheri Moghaddam Nazanin Amirinejad Mohammad Reza Asadi Yousef Daneshmandpour Bashdar Mahmud Hussen Mohammad Taheri Maryam Rezazadeh |
| author_sort | Hani Sabaie |
| collection | DOAJ |
| description | Abstract The etiology of schizophrenia (SCZ), as a serious mental illness, is unknown. The significance of genetics in SCZ pathophysiology is yet unknown, and newly identified mechanisms involved in the regulation of gene transcription may be helpful in determining how these changes affect SCZ development and progression. In the current work, we used a bioinformatics approach to describe the role of long non-coding RNA (lncRNA)-associated competing endogenous RNAs (ceRNAs) in the olfactory epithelium (OE) samples in order to better understand the molecular regulatory processes implicated in SCZ disorders in living individuals. The Gene Expression Omnibus database was used to obtain the OE microarray dataset (GSE73129) from SCZ sufferers and control subjects, which contained information about both lncRNAs and mRNAs. The limma package of R software was used to identify the differentially expressed lncRNAs (DElncRNAs) and mRNAs (DEmRNAs). RNA interaction pairs were discovered using the Human MicroRNA Disease Database, DIANA-LncBase, and miRTarBase databases. In this study, the Pearson correlation coefficient was utilized to find positive correlations between DEmRNAs and DElncRNAs in the ceRNA network. Eventually, lncRNA-associated ceRNA axes were developed based on co-expression relations and DElncRNA-miRNA-DEmRNA interactions. This work found six potential DElncRNA-miRNA-DEmRNA loops in SCZ pathogenesis, including, SNTG2-AS1/hsa-miR-7-5p/SLC7A5, FLG-AS1/hsa-miR-34a-5p/FOSL1, LINC00960/hsa-miR-34a-5p/FOSL1, AQP4-AS1/hsa-miR-335-5p/FMN2, SOX2-OT/hsa-miR-24-3p/NOS3, and CASC2/hsa-miR-24-3p/NOS3. According to the findings, ceRNAs in OE might be promising research targets for studying SCZ molecular mechanisms. This could be a great opportunity to examine different aspects of neurodevelopment that may have been hampered early in SCZ patients. |
| first_indexed | 2024-12-21T23:35:12Z |
| format | Article |
| id | doaj.art-640a9083182d4b29aeb7b102604cba1c |
| institution | Directory Open Access Journal |
| issn | 2045-2322 |
| language | English |
| last_indexed | 2024-12-21T23:35:12Z |
| publishDate | 2021-12-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | Scientific Reports |
| spelling | doaj.art-640a9083182d4b29aeb7b102604cba1c2022-12-21T18:46:23ZengNature PortfolioScientific Reports2045-23222021-12-011111910.1038/s41598-021-04326-0Long non-coding RNA-associated competing endogenous RNA axes in the olfactory epithelium in schizophrenia: a bioinformatics analysisHani Sabaie0Marziyeh Mazaheri Moghaddam1Madiheh Mazaheri Moghaddam2Nazanin Amirinejad3Mohammad Reza Asadi4Yousef Daneshmandpour5Bashdar Mahmud Hussen6Mohammad Taheri7Maryam Rezazadeh8Student Research Committee, Tabriz University of Medical SciencesDepartment of Medical Genetics, Faculty of Medicine, Tabriz University of Medical SciencesDepartment of Genetics and Molecular Medicine, School of Medicine, Zanjan University of Medical Sciences (ZUMS)Department of Biology, Faculty of Sciences, Shahid Bahonar University of KermanDepartment of Medical Genetics, Faculty of Medicine, Tabriz University of Medical SciencesDepartment of Medical Genetics, Faculty of Medicine, Tabriz University of Medical SciencesDepartment of Pharmacognosy, College of Pharmacy, Hawler Medical UniversityMen’s Health and Reproductive Health Research Center, Shahid Beheshti University of Medical SciencesDepartment of Medical Genetics, Faculty of Medicine, Tabriz University of Medical SciencesAbstract The etiology of schizophrenia (SCZ), as a serious mental illness, is unknown. The significance of genetics in SCZ pathophysiology is yet unknown, and newly identified mechanisms involved in the regulation of gene transcription may be helpful in determining how these changes affect SCZ development and progression. In the current work, we used a bioinformatics approach to describe the role of long non-coding RNA (lncRNA)-associated competing endogenous RNAs (ceRNAs) in the olfactory epithelium (OE) samples in order to better understand the molecular regulatory processes implicated in SCZ disorders in living individuals. The Gene Expression Omnibus database was used to obtain the OE microarray dataset (GSE73129) from SCZ sufferers and control subjects, which contained information about both lncRNAs and mRNAs. The limma package of R software was used to identify the differentially expressed lncRNAs (DElncRNAs) and mRNAs (DEmRNAs). RNA interaction pairs were discovered using the Human MicroRNA Disease Database, DIANA-LncBase, and miRTarBase databases. In this study, the Pearson correlation coefficient was utilized to find positive correlations between DEmRNAs and DElncRNAs in the ceRNA network. Eventually, lncRNA-associated ceRNA axes were developed based on co-expression relations and DElncRNA-miRNA-DEmRNA interactions. This work found six potential DElncRNA-miRNA-DEmRNA loops in SCZ pathogenesis, including, SNTG2-AS1/hsa-miR-7-5p/SLC7A5, FLG-AS1/hsa-miR-34a-5p/FOSL1, LINC00960/hsa-miR-34a-5p/FOSL1, AQP4-AS1/hsa-miR-335-5p/FMN2, SOX2-OT/hsa-miR-24-3p/NOS3, and CASC2/hsa-miR-24-3p/NOS3. According to the findings, ceRNAs in OE might be promising research targets for studying SCZ molecular mechanisms. This could be a great opportunity to examine different aspects of neurodevelopment that may have been hampered early in SCZ patients.https://doi.org/10.1038/s41598-021-04326-0 |
| spellingShingle | Hani Sabaie Marziyeh Mazaheri Moghaddam Madiheh Mazaheri Moghaddam Nazanin Amirinejad Mohammad Reza Asadi Yousef Daneshmandpour Bashdar Mahmud Hussen Mohammad Taheri Maryam Rezazadeh Long non-coding RNA-associated competing endogenous RNA axes in the olfactory epithelium in schizophrenia: a bioinformatics analysis Scientific Reports |
| title | Long non-coding RNA-associated competing endogenous RNA axes in the olfactory epithelium in schizophrenia: a bioinformatics analysis |
| title_full | Long non-coding RNA-associated competing endogenous RNA axes in the olfactory epithelium in schizophrenia: a bioinformatics analysis |
| title_fullStr | Long non-coding RNA-associated competing endogenous RNA axes in the olfactory epithelium in schizophrenia: a bioinformatics analysis |
| title_full_unstemmed | Long non-coding RNA-associated competing endogenous RNA axes in the olfactory epithelium in schizophrenia: a bioinformatics analysis |
| title_short | Long non-coding RNA-associated competing endogenous RNA axes in the olfactory epithelium in schizophrenia: a bioinformatics analysis |
| title_sort | long non coding rna associated competing endogenous rna axes in the olfactory epithelium in schizophrenia a bioinformatics analysis |
| url | https://doi.org/10.1038/s41598-021-04326-0 |
| work_keys_str_mv | AT hanisabaie longnoncodingrnaassociatedcompetingendogenousrnaaxesintheolfactoryepitheliuminschizophreniaabioinformaticsanalysis AT marziyehmazaherimoghaddam longnoncodingrnaassociatedcompetingendogenousrnaaxesintheolfactoryepitheliuminschizophreniaabioinformaticsanalysis AT madihehmazaherimoghaddam longnoncodingrnaassociatedcompetingendogenousrnaaxesintheolfactoryepitheliuminschizophreniaabioinformaticsanalysis AT nazaninamirinejad longnoncodingrnaassociatedcompetingendogenousrnaaxesintheolfactoryepitheliuminschizophreniaabioinformaticsanalysis AT mohammadrezaasadi longnoncodingrnaassociatedcompetingendogenousrnaaxesintheolfactoryepitheliuminschizophreniaabioinformaticsanalysis AT yousefdaneshmandpour longnoncodingrnaassociatedcompetingendogenousrnaaxesintheolfactoryepitheliuminschizophreniaabioinformaticsanalysis AT bashdarmahmudhussen longnoncodingrnaassociatedcompetingendogenousrnaaxesintheolfactoryepitheliuminschizophreniaabioinformaticsanalysis AT mohammadtaheri longnoncodingrnaassociatedcompetingendogenousrnaaxesintheolfactoryepitheliuminschizophreniaabioinformaticsanalysis AT maryamrezazadeh longnoncodingrnaassociatedcompetingendogenousrnaaxesintheolfactoryepitheliuminschizophreniaabioinformaticsanalysis |