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Screening and identification of susceptibility genes for osteosarcoma based on bioinformatics analysis
BACKGROUND: Gene play an important role in malignant tumors. However, there is still insufficient research on genetic variations in osteosarcoma (OS) patients. Therefore, we aimed to analyze the gene expression profile of OS using bioinformatics and to explore the pathogenesis of OS at the molecular...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
AME Publishing Company
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9929789/ https://www.ncbi.nlm.nih.gov/pubmed/36819543 http://dx.doi.org/10.21037/atm-22-6369 |
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author | Lu, Zhengyu Xu, Jin Cao, Binhao Jin, Chongqiang |
author_facet | Lu, Zhengyu Xu, Jin Cao, Binhao Jin, Chongqiang |
author_sort | Lu, Zhengyu |
collection | PubMed |
description | BACKGROUND: Gene play an important role in malignant tumors. However, there is still insufficient research on genetic variations in osteosarcoma (OS) patients. Therefore, we aimed to analyze the gene expression profile of OS using bioinformatics and to explore the pathogenesis of OS at the molecular level. METHODS: The gene chip dataset of OS samples was downloaded from the Gene Expression Omnibus (GEO) database for screening differentially expressed genes (DEGs). The R language clusterProfiler software package was used to perform Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis for DEGs. The central node proteins of the protein interaction network were analyzed by the Search Tool for the Retrieval of Interacting Genes/Proteins (STRING) database, Cytoscape, and its plug-ins cytoHubba and NetworkAnalyzer to find the key genes. RESULTS: A total of 631 DEGs were obtained, including 362 upregulated genes and 269 downregulated genes. DEGs were mainly involved in the regulation of leukocyte chemotaxis and migration, vascular development, and other biological processes (BPs); mediation of receptor ligand activity, growth factor binding, growth factor activity, integrin binding, and other molecular functions (MFs); and were enriched in the extracellular matrix (ECM). CONCLUSIONS: DEGs in the ECM and growth factors play a key role in the development of OS. The leukocyte transendothelial migration pathway and the PI3K-AKT pathway are closely related to OS, and the related molecular mechanism is worthy of further study. |
format | Online Article Text |
id | pubmed-9929789 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | AME Publishing Company |
record_format | MEDLINE/PubMed |
spelling | pubmed-99297892023-02-16 Screening and identification of susceptibility genes for osteosarcoma based on bioinformatics analysis Lu, Zhengyu Xu, Jin Cao, Binhao Jin, Chongqiang Ann Transl Med Original Article BACKGROUND: Gene play an important role in malignant tumors. However, there is still insufficient research on genetic variations in osteosarcoma (OS) patients. Therefore, we aimed to analyze the gene expression profile of OS using bioinformatics and to explore the pathogenesis of OS at the molecular level. METHODS: The gene chip dataset of OS samples was downloaded from the Gene Expression Omnibus (GEO) database for screening differentially expressed genes (DEGs). The R language clusterProfiler software package was used to perform Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analysis for DEGs. The central node proteins of the protein interaction network were analyzed by the Search Tool for the Retrieval of Interacting Genes/Proteins (STRING) database, Cytoscape, and its plug-ins cytoHubba and NetworkAnalyzer to find the key genes. RESULTS: A total of 631 DEGs were obtained, including 362 upregulated genes and 269 downregulated genes. DEGs were mainly involved in the regulation of leukocyte chemotaxis and migration, vascular development, and other biological processes (BPs); mediation of receptor ligand activity, growth factor binding, growth factor activity, integrin binding, and other molecular functions (MFs); and were enriched in the extracellular matrix (ECM). CONCLUSIONS: DEGs in the ECM and growth factors play a key role in the development of OS. The leukocyte transendothelial migration pathway and the PI3K-AKT pathway are closely related to OS, and the related molecular mechanism is worthy of further study. AME Publishing Company 2023-01-31 2023-01-31 /pmc/articles/PMC9929789/ /pubmed/36819543 http://dx.doi.org/10.21037/atm-22-6369 Text en 2023 Annals of Translational Medicine. All rights reserved. https://creativecommons.org/licenses/by-nc-nd/4.0/Open Access Statement: This is an Open Access article distributed in accordance with the Creative Commons Attribution-NonCommercial-NoDerivs 4.0 International License (CC BY-NC-ND 4.0), which permits the non-commercial replication and distribution of the article with the strict proviso that no changes or edits are made and the original work is properly cited (including links to both the formal publication through the relevant DOI and the license). See: https://creativecommons.org/licenses/by-nc-nd/4.0 (https://creativecommons.org/licenses/by-nc-nd/4.0/) . |
spellingShingle | Original Article Lu, Zhengyu Xu, Jin Cao, Binhao Jin, Chongqiang Screening and identification of susceptibility genes for osteosarcoma based on bioinformatics analysis |
title | Screening and identification of susceptibility genes for osteosarcoma based on bioinformatics analysis |
title_full | Screening and identification of susceptibility genes for osteosarcoma based on bioinformatics analysis |
title_fullStr | Screening and identification of susceptibility genes for osteosarcoma based on bioinformatics analysis |
title_full_unstemmed | Screening and identification of susceptibility genes for osteosarcoma based on bioinformatics analysis |
title_short | Screening and identification of susceptibility genes for osteosarcoma based on bioinformatics analysis |
title_sort | screening and identification of susceptibility genes for osteosarcoma based on bioinformatics analysis |
topic | Original Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9929789/ https://www.ncbi.nlm.nih.gov/pubmed/36819543 http://dx.doi.org/10.21037/atm-22-6369 |
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