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Prognosis and personalized medicine prediction by integrated whole exome and transcriptome sequencing of hepatocellular carcinoma
Hepatocellular carcinoma (HCC) is a clinically and genetically heterogeneous disease. To better describe the clinical value of the main driver gene mutations of HCC, we analyzed the whole exome sequencing data of 125 patients, and combined with the mutation data in the public database, 14 main mutan...
Autores principales: | , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2023
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9932713/ https://www.ncbi.nlm.nih.gov/pubmed/36816040 http://dx.doi.org/10.3389/fgene.2023.1075347 |
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author | Li, Debao Lei, Lei Wang, Jinsong Tang, Bo Wang, Jiuling Dong, Rui Shi, Wenjiong Liu, Guo Zhao, Tingting Wu, Yuzhang Zhang, Yi |
author_facet | Li, Debao Lei, Lei Wang, Jinsong Tang, Bo Wang, Jiuling Dong, Rui Shi, Wenjiong Liu, Guo Zhao, Tingting Wu, Yuzhang Zhang, Yi |
author_sort | Li, Debao |
collection | PubMed |
description | Hepatocellular carcinoma (HCC) is a clinically and genetically heterogeneous disease. To better describe the clinical value of the main driver gene mutations of HCC, we analyzed the whole exome sequencing data of 125 patients, and combined with the mutation data in the public database, 14 main mutant genes were identified. And we explored the correlation between the main mutation genes and clinical features. Consistent with the results of previous data, we found that TP53 and LRP1B mutations were related to the prognosis of our patients by WES data analysis. And we further explored the associated characteristics of TP53 and LRP1B mutations. However, it is of great clinical significance to tailor a unique prediction method and treatment plan for HCC patients according to the mutation of TP53. For TP53 wild-type HCC patients, we proposed a prognostic risk model based on 11 genes for better predictive value. According to the median risk score of the model, HCC patients with wild-type TP53 were divided into high-risk and low-risk groups. We found significant transcriptome changes in the enrichment of metabolic-related pathways and immunological characteristics between the two groups, suggesting the predictability of HCC immunotherapy by using this model. Through the CMap database, we found that AM580 had potential therapeutic significance for high-risk TP53 wild-type HCC patients. |
format | Online Article Text |
id | pubmed-9932713 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-99327132023-02-17 Prognosis and personalized medicine prediction by integrated whole exome and transcriptome sequencing of hepatocellular carcinoma Li, Debao Lei, Lei Wang, Jinsong Tang, Bo Wang, Jiuling Dong, Rui Shi, Wenjiong Liu, Guo Zhao, Tingting Wu, Yuzhang Zhang, Yi Front Genet Genetics Hepatocellular carcinoma (HCC) is a clinically and genetically heterogeneous disease. To better describe the clinical value of the main driver gene mutations of HCC, we analyzed the whole exome sequencing data of 125 patients, and combined with the mutation data in the public database, 14 main mutant genes were identified. And we explored the correlation between the main mutation genes and clinical features. Consistent with the results of previous data, we found that TP53 and LRP1B mutations were related to the prognosis of our patients by WES data analysis. And we further explored the associated characteristics of TP53 and LRP1B mutations. However, it is of great clinical significance to tailor a unique prediction method and treatment plan for HCC patients according to the mutation of TP53. For TP53 wild-type HCC patients, we proposed a prognostic risk model based on 11 genes for better predictive value. According to the median risk score of the model, HCC patients with wild-type TP53 were divided into high-risk and low-risk groups. We found significant transcriptome changes in the enrichment of metabolic-related pathways and immunological characteristics between the two groups, suggesting the predictability of HCC immunotherapy by using this model. Through the CMap database, we found that AM580 had potential therapeutic significance for high-risk TP53 wild-type HCC patients. Frontiers Media S.A. 2023-02-02 /pmc/articles/PMC9932713/ /pubmed/36816040 http://dx.doi.org/10.3389/fgene.2023.1075347 Text en Copyright © 2023 Li, Lei, Wang, Tang, Wang, Dong, Shi, Liu, Zhao, Wu and Zhang. 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 | Genetics Li, Debao Lei, Lei Wang, Jinsong Tang, Bo Wang, Jiuling Dong, Rui Shi, Wenjiong Liu, Guo Zhao, Tingting Wu, Yuzhang Zhang, Yi Prognosis and personalized medicine prediction by integrated whole exome and transcriptome sequencing of hepatocellular carcinoma |
title | Prognosis and personalized medicine prediction by integrated whole exome and transcriptome sequencing of hepatocellular carcinoma |
title_full | Prognosis and personalized medicine prediction by integrated whole exome and transcriptome sequencing of hepatocellular carcinoma |
title_fullStr | Prognosis and personalized medicine prediction by integrated whole exome and transcriptome sequencing of hepatocellular carcinoma |
title_full_unstemmed | Prognosis and personalized medicine prediction by integrated whole exome and transcriptome sequencing of hepatocellular carcinoma |
title_short | Prognosis and personalized medicine prediction by integrated whole exome and transcriptome sequencing of hepatocellular carcinoma |
title_sort | prognosis and personalized medicine prediction by integrated whole exome and transcriptome sequencing of hepatocellular carcinoma |
topic | Genetics |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9932713/ https://www.ncbi.nlm.nih.gov/pubmed/36816040 http://dx.doi.org/10.3389/fgene.2023.1075347 |
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