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Exploring the potential relationship between frozen shoulder and Dupuytren’s disease through bioinformatics analysis and machine learning

BACKGROUND: Frozen shoulder (FS) and Dupuytren’s disease (DD) are two closely related diseases, but the mechanism of their interaction is unknown. Our study sought to elucidate the molecular mechanism of these two diseases through shared gene and protein interactions. METHODS: GSE75152 and GSE140731...

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Autores principales: Ouyang, Yulong, Chen, Shuilin, Tu, Yuanqing, Wan, Ting, Fan, Hao, Sun, Guicai
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10500125/
https://www.ncbi.nlm.nih.gov/pubmed/37720213
http://dx.doi.org/10.3389/fimmu.2023.1230027
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author Ouyang, Yulong
Chen, Shuilin
Tu, Yuanqing
Wan, Ting
Fan, Hao
Sun, Guicai
author_facet Ouyang, Yulong
Chen, Shuilin
Tu, Yuanqing
Wan, Ting
Fan, Hao
Sun, Guicai
author_sort Ouyang, Yulong
collection PubMed
description BACKGROUND: Frozen shoulder (FS) and Dupuytren’s disease (DD) are two closely related diseases, but the mechanism of their interaction is unknown. Our study sought to elucidate the molecular mechanism of these two diseases through shared gene and protein interactions. METHODS: GSE75152 and GSE140731 data were downloaded from the Gene Expression Omnibus (GEO) database, and shared genes between FS and DD were selected by using R packages. Then, we used Cytoscape software and the STRING database to produce a protein−protein interaction (PPI) network. Important interaction networks and hub genes were selected through MCODE and cytoHubba algorithms. To explore the potential mechanisms of the development of the two diseases, the hub genes were further enriched by GO and KEGG analyses. We predicted the transcription factors (TFs) of hub genes with Transcriptional Regulatory Relationships Unraveled by Sentence-based Text mining (TRRUST). Moreover, we identified candidate genes for FS with DD with cytoHubba and machine learning algorithms. Finally, we analyzed the role of immunocyte infiltration in FS and constructed the relationship between candidate genes and immunocytes in FS. RESULTS: We identified a total of 321 shared genes. The results of GO and KEGG enrichment of shared genes showed that extracellular matrix and collagen fibril tissue play a certain role in the occurrence and development of disease. According to the importance of genes, we constructed the key PPI network of shared genes and the top 15 hub genes for FS with DD. Then, we predicted that five TFs are related to the hub genes and are highly expressed in the FS group. Machine learning results show that the candidate genes POSTN and COL11A1 may be key for FS with DD. Finally, immune cell infiltration revealed the disorder of immunocytes in FS patients, and expression of candidate genes can affect immunocyte infiltration. CONCLUSION: We identified a PPI network, 15 hub genes, and two immune-related candidate genes (POSTN and COL11A1) using bioinformatics analysis and machine learning algorithms. These genes have the potential to serve as diagnostic genes for FS in DD patients. Furthermore, our study reveals disorder of immunocytes in FS.
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spelling pubmed-105001252023-09-15 Exploring the potential relationship between frozen shoulder and Dupuytren’s disease through bioinformatics analysis and machine learning Ouyang, Yulong Chen, Shuilin Tu, Yuanqing Wan, Ting Fan, Hao Sun, Guicai Front Immunol Immunology BACKGROUND: Frozen shoulder (FS) and Dupuytren’s disease (DD) are two closely related diseases, but the mechanism of their interaction is unknown. Our study sought to elucidate the molecular mechanism of these two diseases through shared gene and protein interactions. METHODS: GSE75152 and GSE140731 data were downloaded from the Gene Expression Omnibus (GEO) database, and shared genes between FS and DD were selected by using R packages. Then, we used Cytoscape software and the STRING database to produce a protein−protein interaction (PPI) network. Important interaction networks and hub genes were selected through MCODE and cytoHubba algorithms. To explore the potential mechanisms of the development of the two diseases, the hub genes were further enriched by GO and KEGG analyses. We predicted the transcription factors (TFs) of hub genes with Transcriptional Regulatory Relationships Unraveled by Sentence-based Text mining (TRRUST). Moreover, we identified candidate genes for FS with DD with cytoHubba and machine learning algorithms. Finally, we analyzed the role of immunocyte infiltration in FS and constructed the relationship between candidate genes and immunocytes in FS. RESULTS: We identified a total of 321 shared genes. The results of GO and KEGG enrichment of shared genes showed that extracellular matrix and collagen fibril tissue play a certain role in the occurrence and development of disease. According to the importance of genes, we constructed the key PPI network of shared genes and the top 15 hub genes for FS with DD. Then, we predicted that five TFs are related to the hub genes and are highly expressed in the FS group. Machine learning results show that the candidate genes POSTN and COL11A1 may be key for FS with DD. Finally, immune cell infiltration revealed the disorder of immunocytes in FS patients, and expression of candidate genes can affect immunocyte infiltration. CONCLUSION: We identified a PPI network, 15 hub genes, and two immune-related candidate genes (POSTN and COL11A1) using bioinformatics analysis and machine learning algorithms. These genes have the potential to serve as diagnostic genes for FS in DD patients. Furthermore, our study reveals disorder of immunocytes in FS. Frontiers Media S.A. 2023-08-31 /pmc/articles/PMC10500125/ /pubmed/37720213 http://dx.doi.org/10.3389/fimmu.2023.1230027 Text en Copyright © 2023 Ouyang, Chen, Tu, Wan, Fan and Sun https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Immunology
Ouyang, Yulong
Chen, Shuilin
Tu, Yuanqing
Wan, Ting
Fan, Hao
Sun, Guicai
Exploring the potential relationship between frozen shoulder and Dupuytren’s disease through bioinformatics analysis and machine learning
title Exploring the potential relationship between frozen shoulder and Dupuytren’s disease through bioinformatics analysis and machine learning
title_full Exploring the potential relationship between frozen shoulder and Dupuytren’s disease through bioinformatics analysis and machine learning
title_fullStr Exploring the potential relationship between frozen shoulder and Dupuytren’s disease through bioinformatics analysis and machine learning
title_full_unstemmed Exploring the potential relationship between frozen shoulder and Dupuytren’s disease through bioinformatics analysis and machine learning
title_short Exploring the potential relationship between frozen shoulder and Dupuytren’s disease through bioinformatics analysis and machine learning
title_sort exploring the potential relationship between frozen shoulder and dupuytren’s disease through bioinformatics analysis and machine learning
topic Immunology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10500125/
https://www.ncbi.nlm.nih.gov/pubmed/37720213
http://dx.doi.org/10.3389/fimmu.2023.1230027
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