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Published on: July 29, 2022
Bioinformatic analysis of microRNA expression in Parkinson's disease
Bin Hao1, Xin Chen1, Dongwei Dai1
1Department of Neurosurgery, Changhai Hospital, Second Military Medical University, Shanghai 200433, P.R. China.
Abstract:
Parkinson's disease (PD) is a type of movement disorder caused by loss of dopamine‑producing neurons in the midbrain. In order to identify the synergistic microRNA (miRNA) pattern in PD, miRNA and mRNA double expression profiles of PD were downloaded. Differentially expressed miRNA and mRNA were identified [P<0.01, following false discovery rate (FDR) correction]. A cumulative hypergeometric distribution test was then performed to identify synergistic miRNAs (P<0.01, following FDR correction). Gene ontology (GO) function and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway annotations were performed to analyze the miRNA regulatory target genes. Subsequently, a synergistic miRNA network was constructed and miRNAs exhibiting a high degree were identified. In total, 200 differentially expressed miRNA and 2,966 differentially expressed mRNA were identified. In addition, 1,502 synergistic miRNA interactions were identified, and miRNAs regulated 304 target genes in total. The GO and KEGG analysis demonstrated that these target genes were enriched in biosynthetic and cellular biosynthetic processes, the assembly of cellular components in morphogenesis, mitogen‑activated protein kinase signaling, myometrial relaxation and contraction pathways as well as calcium regulation. The miRNA network demonstrated that miR‑627, miR‑634, miR‑514, miR‑563 and miR‑613 had a high degree. miRNA with a high degree may be associated with the pathogenesis of PD and, therefore, may assist in the diagnosis and therapy of PD.
Insights
This study identifies key microRNA (miRNA) patterns involved in Parkinson's disease (PD) pathogenesis. High-degree miRNAs like miR-627 may aid in PD diagnosis and treatment strategies.
Area of Science:
- Neuroscience
- Genetics
- Molecular Biology
Background:
- Parkinson's disease (PD) is a neurodegenerative disorder characterized by the loss of dopamine-producing neurons.
- Understanding the molecular mechanisms, particularly microRNA (miRNA) involvement, is crucial for PD diagnosis and therapy.
Purpose of the Study:
- To identify synergistic microRNA (miRNA) patterns in Parkinson's disease (PD).
- To construct a miRNA network and identify key regulatory miRNAs associated with PD pathogenesis.
Main Methods:
- Downloaded and analyzed miRNA and mRNA double expression profiles from PD patients.
- Identified differentially expressed miRNAs and mRNAs using statistical correction (FDR).
- Performed cumulative hypergeometric distribution tests, Gene Ontology (GO), and KEGG pathway analysis to identify synergistic miRNAs and their target genes.
Main Results:
- Identified 200 differentially expressed miRNAs and 2,966 differentially expressed mRNAs.
- Discovered 1,502 synergistic miRNA interactions regulating 304 target genes.
- Found target genes enriched in biosynthetic processes, morphogenesis, MAPK signaling, and calcium regulation pathways.
- Identified high-degree miRNAs including miR-627, miR-634, miR-514, miR-563, and miR-613.
Conclusions:
- Synergistic miRNA patterns are implicated in Parkinson's disease.
- High-degree miRNAs identified in the network may play significant roles in PD pathogenesis.
- These findings suggest potential diagnostic and therapeutic biomarkers for Parkinson's disease.
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