Screen key genes associated with distraction-induced osteogenesis of stem cells using bioinformatics methods

Chen, Jishizhan ORCID: https://orcid.org/0000-0002-1784-319X, Hua, Jia ORCID: https://orcid.org/0000-0003-3558-2058 and Song, Wenhui ORCID: https://orcid.org/0000-0001-8406-472X (2021) Screen key genes associated with distraction-induced osteogenesis of stem cells using bioinformatics methods. International Journal of Molecular Sciences, 22 (12) , e6505. ISSN 1661-6596 [Article] (doi:10.3390/ijms22126505)

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Official URL: https://doi.org/10.3390/ijms22126505

Abstract

Background: Applying mesenchymal stem cells (MSCs), together with the distraction osteogenesis (DO) process, displayed enhanced bone quality and shorter treatment periods. The DO guides the differentiation of MSCs by providing mechanical clues. However, the underlying key genes and pathways are largely unknown. The aim of this study was to screen and identify hub genes involved in distraction-induced osteogenesis of MSCs and potential molecular mechanisms.

Material and Methods: The datasets were downloaded from the ArrayExpress database. Three samples of negative control and two samples subjected to 5% cyclic sinusoidal distraction at 0.25 Hz for 6 h were selected for screening differentially expressed genes (DEGs) and then analysed via bioinformatics methods. The Gene Ontology (GO) terms and Kyoto Encyclopaedia of Genes and Genomes (KEGG) pathway enrichment were investigated. The protein–protein interaction (PPI) network was visualised through the Cytoscape software. Gene set enrichment analysis (GSEA) was conducted to verify the enrichment of a self-defined osteogenic gene sets collection and identify osteogenic hub genes.

Results: Three hub genes (IL6, MMP2, and EP300) that were highly associated with distraction-induced osteogenesis of MSCs were identified via the Venn diagram. These hub genes could provide a new understanding of distraction-induced osteogenic differentiation of MSCs and serve as potential gene targets for optimising DO via targeted therapies.

Item Type:	Article
Additional Information:	This article belongs to the Special Issue Different Strategies for Osteogenic Differentiation and Bone Regeneration.
Keywords (uncontrolled):	Bioinformatics, distraction osteogenesis, gene expression, microarray, mesenchymal stem cells
Research Areas:	A. > School of Science and Technology > Natural Sciences > Biophysics and Bioengineering group
Item ID:	33432
Notes on copyright:	© 2021 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
Useful Links:	https://creativecommons.org/licenses/by/... Publisher Publication Data or Supplementary Material Middlesex University Expert Profile
Depositing User:	Jisc Publications Router
Date Deposited:	21 Jun 2021 08:49
Last Modified:	09 Feb 2022 10:41
URI:	https://eprints.mdx.ac.uk/id/eprint/33432

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