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Identification of Regeneration and Hub Genes and Pathways at Different Time Points after Spinal Cord Injury

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Abstract

Spinal cord injury (SCI) is a neurological injury that can cause neuronal loss around the lesion site and leads to locomotive and sensory deficits. However, the underlying molecular mechanisms remain unclear. This study aimed to verify differential gene time-course expression in SCI and provide new insights for gene-level studies. We downloaded two rat expression profiles (GSE464 and GSE45006) from the Gene Expression Omnibus database, including 1 day, 3 days, 7 days, and 14 days post-SCI, along with thoracic spinal cord data for analysis. At each time point, gene integration was performed using “batch normalization.” The raw data were standardized, and differentially expressed genes at the different time points versus the control were analyzed by Gene Ontology enrichment analysis, the Kyoto Encyclopedia of Genes and Genomes pathway analysis, and gene set enrichment analysis. A protein-protein interaction network was then built and visualized. In addition, ten hub genes were identified at each time point. Among them, Gnb5, Gng8, Agt, Gnai1, and Psap lack correlation studies in SCI and deserve further investigation. Finally, we screened and analyzed genes for tissue repair, reconstruction, and regeneration and found that Anxa1, Snap25, and Spp1 were closely related to repair and regeneration after SCI. In conclusion, hub genes, signaling pathways, and regeneration genes involved in secondary SCI were identified in our study. These results may be useful for understanding SCI-related biological processes and the development of targeted intervention strategies.

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Acknowledgements

We thank Dr. Xiao Fang of the Department of Burns (The First Affiliated Hospital of Anhui Medical University) for his help in programming and graphing in computer R language.

Funding

This study was supported by the National Natural Science Foundation of China, Nos. 81871785 and 81672161.

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  1. Sheng Fang, Lin Zhong, and An-quan Wang are co-first authors who contributed equally to this work

Authors and Affiliations

  1. Department of Orthopedics, The First Affiliated Hospital of Anhui Medical University, #218 Jixi Road, Hefei, 230022, Anhui Province, China

    Sheng Fang, Lin Zhong, An-quan Wang, Hui Zhang & Zong-Sheng Yin

  2. Department of Orthopedics, The Third Affiliated Hospital of Anhui Medical University, Hefei, Anhui Province, China

    Lin Zhong

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  1. Sheng Fang
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Contributions

Sheng Fang conceived the original idea and designed the outlines of the study. Lin Zhong and An-quan Wang Helped collect, organize, and check the data. Hui Zhang and Zong-Sheng Yin aided in revising the manuscript. All authors have read and approved the final manuscript.

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Correspondence to Zong-Sheng Yin.

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Fang, S., Zhong, L., Wang, Aq. et al. Identification of Regeneration and Hub Genes and Pathways at Different Time Points after Spinal Cord Injury. Mol Neurobiol 58, 2643–2662 (2021). https://doi.org/10.1007/s12035-021-02289-x

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