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Identification of Key Genes in Thyroid Cancer Microenvironment
BACKGROUND: Tumor microenvironment (TME) plays important roles in the development of cancer. However, the roles of TME in thyroid cancer are not well studied. In our study, we aimed to identify genes related to thyroid cancer microenvironment. MATERIAL/METHODS: We combined The Cancer Genome Atlas (T...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
International Scientific Literature, Inc.
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6929555/ https://www.ncbi.nlm.nih.gov/pubmed/31839674 http://dx.doi.org/10.12659/MSM.918519 |
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author | Zhao, Kankan Yang, Hao Kang, Houlong Wu, Aiguo |
author_facet | Zhao, Kankan Yang, Hao Kang, Houlong Wu, Aiguo |
author_sort | Zhao, Kankan |
collection | PubMed |
description | BACKGROUND: Tumor microenvironment (TME) plays important roles in the development of cancer. However, the roles of TME in thyroid cancer are not well studied. In our study, we aimed to identify genes related to thyroid cancer microenvironment. MATERIAL/METHODS: We combined The Cancer Genome Atlas (TCGA) and Estimation of STromal and Immune cells in Malignant Tumor tissues using Expression data (ESTIMATE) datasets to identify differentially expressed genes in thyroid cancer microenvironment. Then, using these differentially expressed genes, we constructed protein-protein interaction (PPI) network and conducted functional enrichment analysis. Genes with degree beyond 12 in the PPI network were regarded as hub genes. Finally, we conducted Kaplan-Meier curve and log-rank test and functional enrichment analysis on these hub genes. RESULTS: There were 793 differentially expressed genes identified to be associated with immune score and stromal score in thyroid cancer microenvironment. We screened out 30 hub genes by construction of PPI network. The functions of these hub genes were enriched in immune cell activity, cytokine and chemokine activity, cell adhesion molecules, and extracellular matrix, which provided further insight into the roles of these genes in the tumor microenvironment. CXCL10, with the highest degrees in the PPI network, were positively related to overall survival of thyroid cancer patients (P=0.02467). CONCLUSIONS: We identified 30 tumor microenvironment related genes in thyroid cancer. Among these hub genes, CXCL10 can be regarded as a prognostic biomarker in thyroid cancer. |
format | Online Article Text |
id | pubmed-6929555 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | International Scientific Literature, Inc. |
record_format | MEDLINE/PubMed |
spelling | pubmed-69295552019-12-26 Identification of Key Genes in Thyroid Cancer Microenvironment Zhao, Kankan Yang, Hao Kang, Houlong Wu, Aiguo Med Sci Monit Clinical Research BACKGROUND: Tumor microenvironment (TME) plays important roles in the development of cancer. However, the roles of TME in thyroid cancer are not well studied. In our study, we aimed to identify genes related to thyroid cancer microenvironment. MATERIAL/METHODS: We combined The Cancer Genome Atlas (TCGA) and Estimation of STromal and Immune cells in Malignant Tumor tissues using Expression data (ESTIMATE) datasets to identify differentially expressed genes in thyroid cancer microenvironment. Then, using these differentially expressed genes, we constructed protein-protein interaction (PPI) network and conducted functional enrichment analysis. Genes with degree beyond 12 in the PPI network were regarded as hub genes. Finally, we conducted Kaplan-Meier curve and log-rank test and functional enrichment analysis on these hub genes. RESULTS: There were 793 differentially expressed genes identified to be associated with immune score and stromal score in thyroid cancer microenvironment. We screened out 30 hub genes by construction of PPI network. The functions of these hub genes were enriched in immune cell activity, cytokine and chemokine activity, cell adhesion molecules, and extracellular matrix, which provided further insight into the roles of these genes in the tumor microenvironment. CXCL10, with the highest degrees in the PPI network, were positively related to overall survival of thyroid cancer patients (P=0.02467). CONCLUSIONS: We identified 30 tumor microenvironment related genes in thyroid cancer. Among these hub genes, CXCL10 can be regarded as a prognostic biomarker in thyroid cancer. International Scientific Literature, Inc. 2019-12-16 /pmc/articles/PMC6929555/ /pubmed/31839674 http://dx.doi.org/10.12659/MSM.918519 Text en © Med Sci Monit, 2019 This work is licensed under Creative Common Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0 (https://creativecommons.org/licenses/by-nc-nd/4.0/) ) |
spellingShingle | Clinical Research Zhao, Kankan Yang, Hao Kang, Houlong Wu, Aiguo Identification of Key Genes in Thyroid Cancer Microenvironment |
title | Identification of Key Genes in Thyroid Cancer Microenvironment |
title_full | Identification of Key Genes in Thyroid Cancer Microenvironment |
title_fullStr | Identification of Key Genes in Thyroid Cancer Microenvironment |
title_full_unstemmed | Identification of Key Genes in Thyroid Cancer Microenvironment |
title_short | Identification of Key Genes in Thyroid Cancer Microenvironment |
title_sort | identification of key genes in thyroid cancer microenvironment |
topic | Clinical Research |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6929555/ https://www.ncbi.nlm.nih.gov/pubmed/31839674 http://dx.doi.org/10.12659/MSM.918519 |
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