Identification and validation of a prognostic-related mutant gene DNAH5 for hepatocellular carcinoma
BackgroundHepatocellular carcinoma (HCC) is one of the leading causes of cancer-related deaths worldwide and has a poor prognosis. Thus, there is a need for an effective biomarker to improve and predict the prognosis of HCC.MethodsRNA sequencing data, simple nucleotide variation data, and clinical d...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2023-10-01
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| Series: | Frontiers in Immunology |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fimmu.2023.1236995/full |
| _version_ | 1827784009395994624 |
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| author | Zebing Song Xiaodong Song Hang Li Zongbing Cheng Zengyi Mo Xuewei Yang |
| author_facet | Zebing Song Xiaodong Song Hang Li Zongbing Cheng Zengyi Mo Xuewei Yang |
| author_sort | Zebing Song |
| collection | DOAJ |
| description | BackgroundHepatocellular carcinoma (HCC) is one of the leading causes of cancer-related deaths worldwide and has a poor prognosis. Thus, there is a need for an effective biomarker to improve and predict the prognosis of HCC.MethodsRNA sequencing data, simple nucleotide variation data, and clinical data of HCC patients from The Cancer Genome Atlas (TCGA) to identify mutant genes, simple nucleotide variation data, and clinical data of HCC patients from the International Cancer Genome Consortium (ICGC) to validate the prognostic value of mutant genes were the data sources of the present study. To identify the overall survival (OS)-related mutant genes, a Kaplan–Meier (KM) analysis was conducted. We carried out univariate Cox and multivariate Cox regression analyses to identify the independent prognostic factors. We also conducted a correlation analysis of immune cells and mutant genes. To explore the molecular mechanisms of mutant genes, we conducted a gene set enrichment analysis (GSEA). A nomogram was constructed to help predict the prognosis of HCC. In addition, we explored the expression profile of mutant genes in HCC based on a TCGA dataset, an ICGC dataset, and our own HCC tissue samples.ResultsWe identified and validated a mutant gene, dynein axonemal heavy chain 5 (DNAH5), which was negatively related to the OS of HCC patients. Univariate Cox and multivariate Cox regression analyses revealed that the mutant gene DNAH5 could act as an independent prognostic factor for HCC. Most pathways of the mutant gene DNAH5 were involved in cancer development and progression based on GSEA analysis. The mutant gene DNAH5 was negatively correlated with monocytes, naive CD4 T cells, activated dendritic cells, and activated mast cells. In addition, the mRNA and protein levels of DNAH5 had a significantly higher level of expression in the tissue samples of patients with HCC. A nomogram consisting of the pathological stage, DNAH5, and tumor mutation burden (TMB) performed well.ConclusionThe mutant gene DNAH5 had a significantly higher level of expression in the tissue samples of patients with HCC, could act as an independent prognostic factor for HCC, and is a potential new immunotherapy target for HCC. |
| first_indexed | 2024-03-11T15:56:20Z |
| format | Article |
| id | doaj.art-d2d5b530636642b3bbe30de4cf07979c |
| institution | Directory Open Access Journal |
| issn | 1664-3224 |
| language | English |
| last_indexed | 2024-03-11T15:56:20Z |
| publishDate | 2023-10-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Immunology |
| spelling | doaj.art-d2d5b530636642b3bbe30de4cf07979c2023-10-25T10:23:57ZengFrontiers Media S.A.Frontiers in Immunology1664-32242023-10-011410.3389/fimmu.2023.12369951236995Identification and validation of a prognostic-related mutant gene DNAH5 for hepatocellular carcinomaZebing SongXiaodong SongHang LiZongbing ChengZengyi MoXuewei YangBackgroundHepatocellular carcinoma (HCC) is one of the leading causes of cancer-related deaths worldwide and has a poor prognosis. Thus, there is a need for an effective biomarker to improve and predict the prognosis of HCC.MethodsRNA sequencing data, simple nucleotide variation data, and clinical data of HCC patients from The Cancer Genome Atlas (TCGA) to identify mutant genes, simple nucleotide variation data, and clinical data of HCC patients from the International Cancer Genome Consortium (ICGC) to validate the prognostic value of mutant genes were the data sources of the present study. To identify the overall survival (OS)-related mutant genes, a Kaplan–Meier (KM) analysis was conducted. We carried out univariate Cox and multivariate Cox regression analyses to identify the independent prognostic factors. We also conducted a correlation analysis of immune cells and mutant genes. To explore the molecular mechanisms of mutant genes, we conducted a gene set enrichment analysis (GSEA). A nomogram was constructed to help predict the prognosis of HCC. In addition, we explored the expression profile of mutant genes in HCC based on a TCGA dataset, an ICGC dataset, and our own HCC tissue samples.ResultsWe identified and validated a mutant gene, dynein axonemal heavy chain 5 (DNAH5), which was negatively related to the OS of HCC patients. Univariate Cox and multivariate Cox regression analyses revealed that the mutant gene DNAH5 could act as an independent prognostic factor for HCC. Most pathways of the mutant gene DNAH5 were involved in cancer development and progression based on GSEA analysis. The mutant gene DNAH5 was negatively correlated with monocytes, naive CD4 T cells, activated dendritic cells, and activated mast cells. In addition, the mRNA and protein levels of DNAH5 had a significantly higher level of expression in the tissue samples of patients with HCC. A nomogram consisting of the pathological stage, DNAH5, and tumor mutation burden (TMB) performed well.ConclusionThe mutant gene DNAH5 had a significantly higher level of expression in the tissue samples of patients with HCC, could act as an independent prognostic factor for HCC, and is a potential new immunotherapy target for HCC.https://www.frontiersin.org/articles/10.3389/fimmu.2023.1236995/fullhepatocellular carcinomaTMBmutant geneDNAH5immunotherapy target |
| spellingShingle | Zebing Song Xiaodong Song Hang Li Zongbing Cheng Zengyi Mo Xuewei Yang Identification and validation of a prognostic-related mutant gene DNAH5 for hepatocellular carcinoma Frontiers in Immunology hepatocellular carcinoma TMB mutant gene DNAH5 immunotherapy target |
| title | Identification and validation of a prognostic-related mutant gene DNAH5 for hepatocellular carcinoma |
| title_full | Identification and validation of a prognostic-related mutant gene DNAH5 for hepatocellular carcinoma |
| title_fullStr | Identification and validation of a prognostic-related mutant gene DNAH5 for hepatocellular carcinoma |
| title_full_unstemmed | Identification and validation of a prognostic-related mutant gene DNAH5 for hepatocellular carcinoma |
| title_short | Identification and validation of a prognostic-related mutant gene DNAH5 for hepatocellular carcinoma |
| title_sort | identification and validation of a prognostic related mutant gene dnah5 for hepatocellular carcinoma |
| topic | hepatocellular carcinoma TMB mutant gene DNAH5 immunotherapy target |
| url | https://www.frontiersin.org/articles/10.3389/fimmu.2023.1236995/full |
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