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Gene biomarker discovery at different stages of Alzheimer using gene co-expression network approach
Alzheimer's disease (AD) is a chronic neurodegenerative disorder. It is the most common type of dementia that has remained as an incurable disease in the world, which destroys the brain cells irreversibly. In this study, a systems biology approach was adopted to discover novel micro-RNA and gen...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7376049/ https://www.ncbi.nlm.nih.gov/pubmed/32699331 http://dx.doi.org/10.1038/s41598-020-69249-8 |
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author | Soleimani Zakeri, Negar Sadat Pashazadeh, Saeid MotieGhader, Habib |
author_facet | Soleimani Zakeri, Negar Sadat Pashazadeh, Saeid MotieGhader, Habib |
author_sort | Soleimani Zakeri, Negar Sadat |
collection | PubMed |
description | Alzheimer's disease (AD) is a chronic neurodegenerative disorder. It is the most common type of dementia that has remained as an incurable disease in the world, which destroys the brain cells irreversibly. In this study, a systems biology approach was adopted to discover novel micro-RNA and gene-based biomarkers of the diagnosis of Alzheimer's disease. The gene expression data from three AD stages (Normal, Mild Cognitive Impairment, and Alzheimer) were used to reconstruct co-expression networks. After preprocessing and normalization, Weighted Gene Co-Expression Network Analysis (WGCNA) was used on a total of 329 samples, including 145 samples of Alzheimer stage, 80 samples of Mild Cognitive Impairment (MCI) stage, and 104 samples of the Normal stage. Next, three gene-miRNA bipartite networks were reconstructed by comparing the changes in module groups. Then, the functional enrichment analyses of extracted genes of three bipartite networks and miRNAs were done, respectively. Finally, a detailed analysis of the authentic studies was performed to discuss the obtained biomarkers. The outcomes addressed proposed novel genes, including MBOAT1, ARMC7, RABL2B, HNRNPUL1, LAMTOR1, PLAGL2, CREBRF, LCOR, and MRI1and novel miRNAs comprising miR-615-3p, miR-4722-5p, miR-4768-3p, miR-1827, miR-940 and miR-30b-3p which were related to AD. These biomarkers were proposed to be related to AD for the first time and should be examined in future clinical studies. |
format | Online Article Text |
id | pubmed-7376049 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-73760492020-07-24 Gene biomarker discovery at different stages of Alzheimer using gene co-expression network approach Soleimani Zakeri, Negar Sadat Pashazadeh, Saeid MotieGhader, Habib Sci Rep Article Alzheimer's disease (AD) is a chronic neurodegenerative disorder. It is the most common type of dementia that has remained as an incurable disease in the world, which destroys the brain cells irreversibly. In this study, a systems biology approach was adopted to discover novel micro-RNA and gene-based biomarkers of the diagnosis of Alzheimer's disease. The gene expression data from three AD stages (Normal, Mild Cognitive Impairment, and Alzheimer) were used to reconstruct co-expression networks. After preprocessing and normalization, Weighted Gene Co-Expression Network Analysis (WGCNA) was used on a total of 329 samples, including 145 samples of Alzheimer stage, 80 samples of Mild Cognitive Impairment (MCI) stage, and 104 samples of the Normal stage. Next, three gene-miRNA bipartite networks were reconstructed by comparing the changes in module groups. Then, the functional enrichment analyses of extracted genes of three bipartite networks and miRNAs were done, respectively. Finally, a detailed analysis of the authentic studies was performed to discuss the obtained biomarkers. The outcomes addressed proposed novel genes, including MBOAT1, ARMC7, RABL2B, HNRNPUL1, LAMTOR1, PLAGL2, CREBRF, LCOR, and MRI1and novel miRNAs comprising miR-615-3p, miR-4722-5p, miR-4768-3p, miR-1827, miR-940 and miR-30b-3p which were related to AD. These biomarkers were proposed to be related to AD for the first time and should be examined in future clinical studies. Nature Publishing Group UK 2020-07-22 /pmc/articles/PMC7376049/ /pubmed/32699331 http://dx.doi.org/10.1038/s41598-020-69249-8 Text en © The Author(s) 2020 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Soleimani Zakeri, Negar Sadat Pashazadeh, Saeid MotieGhader, Habib Gene biomarker discovery at different stages of Alzheimer using gene co-expression network approach |
title | Gene biomarker discovery at different stages of Alzheimer using gene co-expression network approach |
title_full | Gene biomarker discovery at different stages of Alzheimer using gene co-expression network approach |
title_fullStr | Gene biomarker discovery at different stages of Alzheimer using gene co-expression network approach |
title_full_unstemmed | Gene biomarker discovery at different stages of Alzheimer using gene co-expression network approach |
title_short | Gene biomarker discovery at different stages of Alzheimer using gene co-expression network approach |
title_sort | gene biomarker discovery at different stages of alzheimer using gene co-expression network approach |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7376049/ https://www.ncbi.nlm.nih.gov/pubmed/32699331 http://dx.doi.org/10.1038/s41598-020-69249-8 |
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