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Establishment and experimental validation of a novel cuproptosis-related gene signature for prognostic implication in cholangiocarcinoma
BACKGROUND: Cholangiocarcinoma (CCA) is a highly malignant, heterogeneous bile duct malignancy with poor treatment options. A novel type of cell death termed cuproptosis was recently demonstrated to closely correlate with tumor progression. To gain more insight into the role of cuproptosis in CCA, w...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9773249/ https://www.ncbi.nlm.nih.gov/pubmed/36568224 http://dx.doi.org/10.3389/fonc.2022.1054063 |
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author | Chen, Jialu Yu, Xiaopeng Tong, Huanjun Tang, Chengwei Tang, Zhaohui |
author_facet | Chen, Jialu Yu, Xiaopeng Tong, Huanjun Tang, Chengwei Tang, Zhaohui |
author_sort | Chen, Jialu |
collection | PubMed |
description | BACKGROUND: Cholangiocarcinoma (CCA) is a highly malignant, heterogeneous bile duct malignancy with poor treatment options. A novel type of cell death termed cuproptosis was recently demonstrated to closely correlate with tumor progression. To gain more insight into the role of cuproptosis in CCA, we investigated the prognostic implications of cuproptosis related genes (CRGs) and their relationship to the development of CCA. METHODS: Gene expression data for CCA were obtained from the European Bioinformatics Institute (EMBL-EBI) database. Least absolute shrinkage and selection operator (LASSO) penalized Cox regression was used to construct a prognostic risk model based on CRGs. RNA-seq, qRT−PCR and immunohistochemistry staining were used to verify the expression of CRGs in human CCA tissues or cell lines. Further in vitro experiments were performed to demonstrate the role of cuproptosis in CCA. RESULTS: We established a 4-gene signature (ATP7A, FDX1, DBT and LIAS) that exhibited good stability and was an independent prognostic factor for CCA. Seventy-five CCA samples were divided into high- and low-risk groups based on the risk score. Enrichment analysis revealed increased extracellular activity in the high-risk group and increased lipid metabolic activity in the low-risk group. Moreover, the 4 signature genes were verified in clinical samples and cell lines by RNA-seq, qRT−PCR and immunohistochemistry. Further experiments confirmed that cuproptosis can significantly inhibit the viability of CCA cells. Knockdown of the key gene LIAS ameliorated the toxicity of cuproptosis to CCA cells. CONCLUSION: We established a 4-gene prognostic signature based on cuproptosis and explored the role of cuproptosis in CCA. The results provide an effective indicator for predicting the prognosis of cuproptosis in CCA. |
format | Online Article Text |
id | pubmed-9773249 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-97732492022-12-23 Establishment and experimental validation of a novel cuproptosis-related gene signature for prognostic implication in cholangiocarcinoma Chen, Jialu Yu, Xiaopeng Tong, Huanjun Tang, Chengwei Tang, Zhaohui Front Oncol Oncology BACKGROUND: Cholangiocarcinoma (CCA) is a highly malignant, heterogeneous bile duct malignancy with poor treatment options. A novel type of cell death termed cuproptosis was recently demonstrated to closely correlate with tumor progression. To gain more insight into the role of cuproptosis in CCA, we investigated the prognostic implications of cuproptosis related genes (CRGs) and their relationship to the development of CCA. METHODS: Gene expression data for CCA were obtained from the European Bioinformatics Institute (EMBL-EBI) database. Least absolute shrinkage and selection operator (LASSO) penalized Cox regression was used to construct a prognostic risk model based on CRGs. RNA-seq, qRT−PCR and immunohistochemistry staining were used to verify the expression of CRGs in human CCA tissues or cell lines. Further in vitro experiments were performed to demonstrate the role of cuproptosis in CCA. RESULTS: We established a 4-gene signature (ATP7A, FDX1, DBT and LIAS) that exhibited good stability and was an independent prognostic factor for CCA. Seventy-five CCA samples were divided into high- and low-risk groups based on the risk score. Enrichment analysis revealed increased extracellular activity in the high-risk group and increased lipid metabolic activity in the low-risk group. Moreover, the 4 signature genes were verified in clinical samples and cell lines by RNA-seq, qRT−PCR and immunohistochemistry. Further experiments confirmed that cuproptosis can significantly inhibit the viability of CCA cells. Knockdown of the key gene LIAS ameliorated the toxicity of cuproptosis to CCA cells. CONCLUSION: We established a 4-gene prognostic signature based on cuproptosis and explored the role of cuproptosis in CCA. The results provide an effective indicator for predicting the prognosis of cuproptosis in CCA. Frontiers Media S.A. 2022-12-08 /pmc/articles/PMC9773249/ /pubmed/36568224 http://dx.doi.org/10.3389/fonc.2022.1054063 Text en Copyright © 2022 Chen, Yu, Tong, Tang and Tang 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 | Oncology Chen, Jialu Yu, Xiaopeng Tong, Huanjun Tang, Chengwei Tang, Zhaohui Establishment and experimental validation of a novel cuproptosis-related gene signature for prognostic implication in cholangiocarcinoma |
title | Establishment and experimental validation of a novel cuproptosis-related gene signature for prognostic implication in cholangiocarcinoma |
title_full | Establishment and experimental validation of a novel cuproptosis-related gene signature for prognostic implication in cholangiocarcinoma |
title_fullStr | Establishment and experimental validation of a novel cuproptosis-related gene signature for prognostic implication in cholangiocarcinoma |
title_full_unstemmed | Establishment and experimental validation of a novel cuproptosis-related gene signature for prognostic implication in cholangiocarcinoma |
title_short | Establishment and experimental validation of a novel cuproptosis-related gene signature for prognostic implication in cholangiocarcinoma |
title_sort | establishment and experimental validation of a novel cuproptosis-related gene signature for prognostic implication in cholangiocarcinoma |
topic | Oncology |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9773249/ https://www.ncbi.nlm.nih.gov/pubmed/36568224 http://dx.doi.org/10.3389/fonc.2022.1054063 |
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