Differential Expression and miRNA–Gene Interactions in Early and Late Mild Cognitive Impairment
Mild cognitive impairment (MCI) and Alzheimer’s Disease (AD) are complex diseases with their molecular architecture not elucidated. <i>APOE</i>, Amyloid Beta Precursor Protein (<i>APP</i>), and Presenilin-1 (<i>PSEN1</i>) are well-known genes associated with both...
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MDPI AG
2020-08-01
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| Online Access: | https://www.mdpi.com/2079-7737/9/9/251 |
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| author | Leonardo Miranda Brito Ândrea Ribeiro-dos-Santos Amanda Ferreira Vidal Gilderlanio Santana de Araújo |
| author_facet | Leonardo Miranda Brito Ândrea Ribeiro-dos-Santos Amanda Ferreira Vidal Gilderlanio Santana de Araújo |
| author_sort | Leonardo Miranda Brito |
| collection | DOAJ |
| description | Mild cognitive impairment (MCI) and Alzheimer’s Disease (AD) are complex diseases with their molecular architecture not elucidated. <i>APOE</i>, Amyloid Beta Precursor Protein (<i>APP</i>), and Presenilin-1 (<i>PSEN1</i>) are well-known genes associated with both MCI and AD. Recently, epigenetic alterations and dysregulated regulatory elements, such as microRNAs (miRNAs), have been reported associated with neurodegeneration. In this study, differential expression analysis (DEA) was performed for genes and miRNAs based on microarray and RNA-Seq data. Global gene profile of healthy individuals, early and late mild cognitive impairment (EMCI and LMCI, respectively), and AD was obtained from ADNI Cohort. miRNA global profile of healthy individuals and AD patients was extracted from public RNA-Seq data. DEA performed with <i>limma</i> package on ADNI Cohort data highlighted eight differential expressed (DE) genes (<i>AGER</i>, <i>LINC00483</i>, <i>MMP19</i>, <i>CATSPER1</i>, <i>ARFGAP1</i>, <i>GPER1</i>, <i>PHLPP2</i>, <i>TRPM2</i>) (false discovery rate (FDR) <i>p</i>-value < 0.05) between EMCI and LMCI patients. Previous molecular studies showed associations between these genes with dementia and neurological-related pathways. Five dysregulated miRNAs were identified by DEA performed with RNA-Seq data and <i>edgeR</i> (FDR <i>p</i>-value < 0.002). All reported miRNAs in AD interact with the aforementioned genes. Our integrative transcriptomic analysis was able to identify a set of miRNA–gene interactions that may be involved in cognitive and neurodegeneration processes. |
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| language | English |
| last_indexed | 2024-03-10T16:44:43Z |
| publishDate | 2020-08-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Biology |
| spelling | doaj.art-3b108baefa8341e1956aa59fc85493af2023-11-20T11:41:05ZengMDPI AGBiology2079-77372020-08-019925110.3390/biology9090251Differential Expression and miRNA–Gene Interactions in Early and Late Mild Cognitive ImpairmentLeonardo Miranda Brito0Ândrea Ribeiro-dos-Santos1Amanda Ferreira Vidal2Gilderlanio Santana de Araújo3Laboratório de Genética Humana e Médica, Instituto de Ciêncas Biológicas, Universidade Federal do Pará, Belém 66075-110, BrazilLaboratório de Genética Humana e Médica, Instituto de Ciêncas Biológicas, Universidade Federal do Pará, Belém 66075-110, BrazilLaboratório de Genética Humana e Médica, Instituto de Ciêncas Biológicas, Universidade Federal do Pará, Belém 66075-110, BrazilLaboratório de Genética Humana e Médica, Instituto de Ciêncas Biológicas, Universidade Federal do Pará, Belém 66075-110, BrazilMild cognitive impairment (MCI) and Alzheimer’s Disease (AD) are complex diseases with their molecular architecture not elucidated. <i>APOE</i>, Amyloid Beta Precursor Protein (<i>APP</i>), and Presenilin-1 (<i>PSEN1</i>) are well-known genes associated with both MCI and AD. Recently, epigenetic alterations and dysregulated regulatory elements, such as microRNAs (miRNAs), have been reported associated with neurodegeneration. In this study, differential expression analysis (DEA) was performed for genes and miRNAs based on microarray and RNA-Seq data. Global gene profile of healthy individuals, early and late mild cognitive impairment (EMCI and LMCI, respectively), and AD was obtained from ADNI Cohort. miRNA global profile of healthy individuals and AD patients was extracted from public RNA-Seq data. DEA performed with <i>limma</i> package on ADNI Cohort data highlighted eight differential expressed (DE) genes (<i>AGER</i>, <i>LINC00483</i>, <i>MMP19</i>, <i>CATSPER1</i>, <i>ARFGAP1</i>, <i>GPER1</i>, <i>PHLPP2</i>, <i>TRPM2</i>) (false discovery rate (FDR) <i>p</i>-value < 0.05) between EMCI and LMCI patients. Previous molecular studies showed associations between these genes with dementia and neurological-related pathways. Five dysregulated miRNAs were identified by DEA performed with RNA-Seq data and <i>edgeR</i> (FDR <i>p</i>-value < 0.002). All reported miRNAs in AD interact with the aforementioned genes. Our integrative transcriptomic analysis was able to identify a set of miRNA–gene interactions that may be involved in cognitive and neurodegeneration processes.https://www.mdpi.com/2079-7737/9/9/251mild cognitive impairmentAlzheimer’s DiseasegenesmiRNAsregulatory interactions |
| spellingShingle | Leonardo Miranda Brito Ândrea Ribeiro-dos-Santos Amanda Ferreira Vidal Gilderlanio Santana de Araújo Differential Expression and miRNA–Gene Interactions in Early and Late Mild Cognitive Impairment Biology mild cognitive impairment Alzheimer’s Disease genes miRNAs regulatory interactions |
| title | Differential Expression and miRNA–Gene Interactions in Early and Late Mild Cognitive Impairment |
| title_full | Differential Expression and miRNA–Gene Interactions in Early and Late Mild Cognitive Impairment |
| title_fullStr | Differential Expression and miRNA–Gene Interactions in Early and Late Mild Cognitive Impairment |
| title_full_unstemmed | Differential Expression and miRNA–Gene Interactions in Early and Late Mild Cognitive Impairment |
| title_short | Differential Expression and miRNA–Gene Interactions in Early and Late Mild Cognitive Impairment |
| title_sort | differential expression and mirna gene interactions in early and late mild cognitive impairment |
| topic | mild cognitive impairment Alzheimer’s Disease genes miRNAs regulatory interactions |
| url | https://www.mdpi.com/2079-7737/9/9/251 |
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