Comprehensive bioinformatics analysis of the role of VWF in the tumor microenvironment of malignant mesothelioma

To explore the influence and effect of tumor microenvironment on the development of malignant mesothelioma using machine learning methods. 87 open cases were downloaded from the Cancer Genome Atlas database including transcriptome data, clinical data, and mutation data. The immune, stromal, and esti...

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Autores principales: Weng, Jiren, Chen, Jing
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Lippincott Williams & Wilkins 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10578691/
https://www.ncbi.nlm.nih.gov/pubmed/37832118
http://dx.doi.org/10.1097/MD.0000000000035579
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author Weng, Jiren
Chen, Jing
author_facet Weng, Jiren
Chen, Jing
author_sort Weng, Jiren
collection PubMed
description To explore the influence and effect of tumor microenvironment on the development of malignant mesothelioma using machine learning methods. 87 open cases were downloaded from the Cancer Genome Atlas database including transcriptome data, clinical data, and mutation data. The immune, stromal, and estimate scores were calculated for each case by using the ESTIMATE algorithm, and then the cases were grouped according to high and low stromal scores to predict all-cause survival in malignant mesothelioma cases. Their mutation data were analyzed to reveal the differences in mutated genes between the 2 groups, and then the von Willebrand factor (VWF) and FCRL3 genes were identified according to the intersection of DEGs and high-frequency mutated genes. Lastly, the correlation between VWF and the immune checkpoint of 22 kinds of immune cells was analyzed by using the CIBERSORT package of R software. A significant difference was found in the survival time of patients between the high and low stromal score groups. High expression of the VWF gene was negatively correlated with the prognosis of malignant mesothelioma, and the expression of VWF was positively correlated with naive B cells and activated CD4 memory T cells and negatively correlated with NK cells. The results revealed that high expression of VWF may involve in the development of malignant mesothelioma, and the anti-CTLA4 immune checkpoint treatment may have certain efficacy.
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spelling pubmed-105786912023-10-17 Comprehensive bioinformatics analysis of the role of VWF in the tumor microenvironment of malignant mesothelioma Weng, Jiren Chen, Jing Medicine (Baltimore) 5700 To explore the influence and effect of tumor microenvironment on the development of malignant mesothelioma using machine learning methods. 87 open cases were downloaded from the Cancer Genome Atlas database including transcriptome data, clinical data, and mutation data. The immune, stromal, and estimate scores were calculated for each case by using the ESTIMATE algorithm, and then the cases were grouped according to high and low stromal scores to predict all-cause survival in malignant mesothelioma cases. Their mutation data were analyzed to reveal the differences in mutated genes between the 2 groups, and then the von Willebrand factor (VWF) and FCRL3 genes were identified according to the intersection of DEGs and high-frequency mutated genes. Lastly, the correlation between VWF and the immune checkpoint of 22 kinds of immune cells was analyzed by using the CIBERSORT package of R software. A significant difference was found in the survival time of patients between the high and low stromal score groups. High expression of the VWF gene was negatively correlated with the prognosis of malignant mesothelioma, and the expression of VWF was positively correlated with naive B cells and activated CD4 memory T cells and negatively correlated with NK cells. The results revealed that high expression of VWF may involve in the development of malignant mesothelioma, and the anti-CTLA4 immune checkpoint treatment may have certain efficacy. Lippincott Williams & Wilkins 2023-10-13 /pmc/articles/PMC10578691/ /pubmed/37832118 http://dx.doi.org/10.1097/MD.0000000000035579 Text en Copyright © 2023 the Author(s). Published by Wolters Kluwer Health, Inc. https://creativecommons.org/licenses/by-nc/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution-Non Commercial License 4.0 (CCBY-NC) (https://creativecommons.org/licenses/by-nc/4.0/) , where it is permissible to download, share, remix, transform, and buildup the work provided it is properly cited. The work cannot be used commercially without permission from the journal.
spellingShingle 5700
Weng, Jiren
Chen, Jing
Comprehensive bioinformatics analysis of the role of VWF in the tumor microenvironment of malignant mesothelioma
title Comprehensive bioinformatics analysis of the role of VWF in the tumor microenvironment of malignant mesothelioma
title_full Comprehensive bioinformatics analysis of the role of VWF in the tumor microenvironment of malignant mesothelioma
title_fullStr Comprehensive bioinformatics analysis of the role of VWF in the tumor microenvironment of malignant mesothelioma
title_full_unstemmed Comprehensive bioinformatics analysis of the role of VWF in the tumor microenvironment of malignant mesothelioma
title_short Comprehensive bioinformatics analysis of the role of VWF in the tumor microenvironment of malignant mesothelioma
title_sort comprehensive bioinformatics analysis of the role of vwf in the tumor microenvironment of malignant mesothelioma
topic 5700
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10578691/
https://www.ncbi.nlm.nih.gov/pubmed/37832118
http://dx.doi.org/10.1097/MD.0000000000035579
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