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Meta-Analysis of Differentially Expressed Genes in the Substantia Nigra in Parkinson's Disease Supports Phenotype-Specific Transcriptome Changes

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dc.contributor.author김윤중-
dc.date.accessioned2021-01-19T08:03:15Z-
dc.date.available2021-01-19T08:03:15Z-
dc.date.issued2020-12-
dc.identifier.issn1662-4548-
dc.identifier.urihttps://ir.ymlib.yonsei.ac.kr/handle/22282913/181439-
dc.description.abstractBackground: Studies regarding differentially expressed genes (DEGs) in Parkinson's disease (PD) have focused on common upstream regulators or dysregulated pathways or ontologies; however, the relationships between DEGs and disease-related or cell type-enriched genes have not been systematically studied. Meta-analysis of DEGs (meta-DEGs) are expected to overcome the limitations, such as replication failure and small sample size of previous studies. Purpose: Meta-DEGs were performed to investigate dysregulated genes enriched with neurodegenerative disorder causative or risk genes in a phenotype-specific manner. Methods: Six microarray datasets from PD patients and controls, for which substantia nigra sample transcriptome data were available, were downloaded from the NINDS data repository. Meta-DEGs were performed using two methods, combining p-values and combing effect size, and common DEGs were used for secondary analyses. Gene sets of cell type-enriched or disease-related genes for PD, Alzheimer's disease (AD), and hereditary progressive ataxia were constructed by curation of public databases and/or published literatures. Results: Our meta-analyses revealed 449 downregulated and 137 upregulated genes. Overrepresentation analyses with cell type-enriched genes were significant in neuron-enriched genes but not in astrocyte- or microglia-enriched genes. Meta-DEGs were significantly enriched in causative genes for hereditary disorders accompanying parkinsonism but not in genes associated with AD or hereditary progressive ataxia. Enrichment of PD-related genes was highly significant in downregulated DEGs but insignificant in upregulated genes. Conclusion: Downregulated meta-DEGs were associated with PD-related genes, but not with other neurodegenerative disorder genes. These results highlight disease phenotype-specific changes in dysregulated genes in PD.-
dc.description.statementOfResponsibilityopen-
dc.languageEnglish-
dc.publisherFrontiers Research Foundation-
dc.relation.isPartOfFRONTIERS IN NEUROSCIENCE-
dc.rightsCC BY-NC-ND 2.0 KR-
dc.titleMeta-Analysis of Differentially Expressed Genes in the Substantia Nigra in Parkinson's Disease Supports Phenotype-Specific Transcriptome Changes-
dc.typeArticle-
dc.contributor.collegeCollege of Medicine (의과대학)-
dc.contributor.departmentDept. of Neurology (신경과학교실)-
dc.contributor.googleauthorDuong My Phung-
dc.contributor.googleauthorJinwoo Lee-
dc.contributor.googleauthorSangKyoon Hong-
dc.contributor.googleauthorYoung Eun Kim-
dc.contributor.googleauthorJeehee Yoon-
dc.contributor.googleauthorYun Joong Kim-
dc.identifier.doi10.3389/fnins.2020.596105-
dc.contributor.localIdA00796-
dc.relation.journalcodeJ02867-
dc.identifier.eissn1662-453X-
dc.identifier.pmid33390883-
dc.subject.keywordParkinson’s disease-
dc.subject.keyworddifferentially expressed genes-
dc.subject.keyworddisease-related genes-
dc.subject.keywordmeta-analysis-
dc.subject.keywordsubstantia nigra-
dc.contributor.alternativeNameKim, Yun Joong-
dc.contributor.affiliatedAuthor김윤중-
dc.citation.volume14-
dc.citation.startPage596105-
dc.identifier.bibliographicCitationFRONTIERS IN NEUROSCIENCE, Vol.14 : 596105, 2020-12-
Appears in Collections:
1. College of Medicine (의과대학) > Dept. of Neurology (신경과학교실) > 1. Journal Papers

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