Integrated bioinformatics and validation to construct lncRNA-miRNA-mRNA ceRNA network in status epilepticus
© 2023 The Authors..
Background: Status epilepticus (SE) is a neurologic emergency with characteristic of prolonged seizure activity. However, the investigation of lncRNA based competing endogenous RNAs (ceRNAs) network in SE still requires further elucidation. This study aims to construct the ceRNA network and uncover the related mechanism in SE.
Methods: The C57BL/6 mice pilocarpine-induced (SE) model was established (i.p. injection, 300 mg/kg) (n = 3). RNA-Sequencing was carried out and identified the differential expressed genes (DEGs). GO annotations, KEGG, and GSEA analysis were performed to study the underlying mechanism and pathways of the DEGs. Further, the protein-protein interaction (PPI) network and ceRNA network were visualized by Cytoscape software. The expression level of differential expressed genes involved in the ceRNA network was detected by qRT-PCR.
Results: A total of 345 DE-mRNAs, 84 DE-lncRNAs, and 5 DE-miRNAs were screened out. Subsequently, the functional analysis suggested that angiogenesis, inflammation, and neuron related biological processes were enriched in SE. The constructed ceRNA network-1 contained 7 up-regulated DE-mRNAs (Arid5a, Adm, Insig1, Midn, Btaf1, Per1, Slc25a25), 1 down-regulated DE-miRNA (mmu-miR-6413), and 1 up-regulated DE-lncRNA (Zmiz1os1). The ceRNA network-2 contained 2 down-regulated DE-mRNAs (Rab27a and Lrp2), 1 up-regulated DE-miRNAs (mmu-miR-139-5p), and 1 down-regulated DE-lncRNA (Gm15883).
Conclusion: For the first time this study present the expression profile and potential function of lncRNAs in C57BL/6 mice with SE. These results provided novel insights into the discovery of genetic biomarkers for SE.
| Medienart: |
E-Artikel |
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| Erscheinungsjahr: |
2023 |
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| Erschienen: |
2023 |
| Enthalten in: |
Zur Gesamtaufnahme - volume:9 |
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| Enthalten in: |
Heliyon - 9(2023), 11 vom: 01. Nov., Seite e22205 |
| Sprache: |
Englisch |
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| Beteiligte Personen: |
Lin, Yaojing [VerfasserIn] |
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| Links: |
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| Themen: |
Bioinformatics |
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| Anmerkungen: |
Date Revised 11.12.2023 published: Electronic-eCollection Citation Status PubMed-not-MEDLINE |
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| doi: |
10.1016/j.heliyon.2023.e22205 |
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| funding: |
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| Förderinstitution / Projekttitel: |
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| PPN (Katalog-ID): |
NLM365656909 |
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| 520 | |a © 2023 The Authors. | ||
| 520 | |a Background: Status epilepticus (SE) is a neurologic emergency with characteristic of prolonged seizure activity. However, the investigation of lncRNA based competing endogenous RNAs (ceRNAs) network in SE still requires further elucidation. This study aims to construct the ceRNA network and uncover the related mechanism in SE | ||
| 520 | |a Methods: The C57BL/6 mice pilocarpine-induced (SE) model was established (i.p. injection, 300 mg/kg) (n = 3). RNA-Sequencing was carried out and identified the differential expressed genes (DEGs). GO annotations, KEGG, and GSEA analysis were performed to study the underlying mechanism and pathways of the DEGs. Further, the protein-protein interaction (PPI) network and ceRNA network were visualized by Cytoscape software. The expression level of differential expressed genes involved in the ceRNA network was detected by qRT-PCR | ||
| 520 | |a Results: A total of 345 DE-mRNAs, 84 DE-lncRNAs, and 5 DE-miRNAs were screened out. Subsequently, the functional analysis suggested that angiogenesis, inflammation, and neuron related biological processes were enriched in SE. The constructed ceRNA network-1 contained 7 up-regulated DE-mRNAs (Arid5a, Adm, Insig1, Midn, Btaf1, Per1, Slc25a25), 1 down-regulated DE-miRNA (mmu-miR-6413), and 1 up-regulated DE-lncRNA (Zmiz1os1). The ceRNA network-2 contained 2 down-regulated DE-mRNAs (Rab27a and Lrp2), 1 up-regulated DE-miRNAs (mmu-miR-139-5p), and 1 down-regulated DE-lncRNA (Gm15883) | ||
| 520 | |a Conclusion: For the first time this study present the expression profile and potential function of lncRNAs in C57BL/6 mice with SE. These results provided novel insights into the discovery of genetic biomarkers for SE | ||
| 650 | 4 | |a Journal Article | |
| 650 | 4 | |a Bioinformatics | |
| 650 | 4 | |a RNA sequencing | |
| 650 | 4 | |a Status epilepticus | |
| 650 | 4 | |a ceRNA network | |
| 700 | 1 | |a Wen, Hanyu |e verfasserin |4 aut | |
| 700 | 1 | |a Yang, Bin |e verfasserin |4 aut | |
| 700 | 1 | |a Wang, Chunhua |e verfasserin |4 aut | |
| 700 | 1 | |a Liang, Risheng |e verfasserin |4 aut | |
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