Integration Analysis of m6A Regulators and m6A-Related Genes in Hepatocellular Carcinoma
Background: N6-Methyladenosine (m6A) RNA methylation of eukaryotic mRNA is involved in the progression of various tumors. We aimed to investigate m6A-related genes and m6A regulators in hepatocellular carcinoma (HCC) and their association with prognosis in HCC. Methods: We downloaded liver cancer sa...
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| Format: | Article |
| Language: | English |
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Compuscript Ltd
2021-11-01
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| Series: | BIO Integration |
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| Online Access: | https://www.ingentaconnect.com/contentone/cscript/bioi/2021/00000002/00000003/art00002 |
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| author | Jingdun Xie Zhenhua Qi Xiaolin Luo Fang Yan Wei Xing Weian Zeng Dongtai Chen Qiang Li |
| author_facet | Jingdun Xie Zhenhua Qi Xiaolin Luo Fang Yan Wei Xing Weian Zeng Dongtai Chen Qiang Li |
| author_sort | Jingdun Xie |
| collection | DOAJ |
| description | Background: N6-Methyladenosine (m6A) RNA methylation of eukaryotic mRNA is involved in the progression of various tumors. We aimed to investigate m6A-related genes and m6A regulators in hepatocellular carcinoma (HCC) and their association with prognosis in HCC. Methods: We downloaded liver cancer sample data from The Cancer Genome Atlas (TCGA) and the International Cancer Genome Consortium database. A total of 21 m6A regulators and 1258 m6A-related genes were then analyzed by consensus clustering, Spearman’s correlation, GO, KEGG, LASSO Cox regression, and univariate Cox regression analyses. Finally, we constructed a risk prognostic model. Results: We obtained 192 candidate m6A-related genes and 3 m6A regulators, including YTHDF1, YTHDF2, and YTHDC1. The expression of these genes and regulators differed significantly in different stages of HCC. Based on Cox regression analysis, 19 of 98 m6A-related prognostic genes were obtained to construct a risk score model. The 1- and 3-year area under the curves (AUCs) among HCC patients were greater than 0.7. Finally, based on analysis of mutation differences between high- and low-risk score groups, we determined that TP53 had the highest mutation frequency in the high-risk HCC patient group, whereas titin (TTN) had the highest mutation frequency in the low-risk HCC patient group. Conclusion: This study comprehensively analyzed m6A regulators and m6A-related genes through an integrated bioinformatic analysis, including expression, clustering, protein–protein interaction, and prognosis, thus providing novel insights into the roles of m6A regulators and m6A-related genes in HCC. |
| first_indexed | 2024-04-10T05:33:23Z |
| format | Article |
| id | doaj.art-67463e53313e4bfbb55fab9c76f2d171 |
| institution | Directory Open Access Journal |
| issn | 2712-0082 |
| language | English |
| last_indexed | 2024-04-10T05:33:23Z |
| publishDate | 2021-11-01 |
| publisher | Compuscript Ltd |
| record_format | Article |
| series | BIO Integration |
| spelling | doaj.art-67463e53313e4bfbb55fab9c76f2d1712023-03-07T04:03:33ZengCompuscript LtdBIO Integration2712-00822021-11-01239410810.15212/bioi-2021-0002Integration Analysis of m6A Regulators and m6A-Related Genes in Hepatocellular CarcinomaJingdun Xie0Zhenhua Qi1Xiaolin Luo2Fang Yan3Wei Xing4Weian Zeng5Dongtai Chen6Qiang Li7Department of Anesthesiology, Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in Southern China, Collaborative Innovation for Cancer Medicine, Guangzhou, Guangdong 510000, ChinaDepartment of Anesthesiology, Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in Southern China, Collaborative Innovation for Cancer Medicine, Guangzhou, Guangdong 510000, ChinaDepartment of Anesthesiology, Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in Southern China, Collaborative Innovation for Cancer Medicine, Guangzhou, Guangdong 510000, ChinaDepartment of Anesthesiology, Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in Southern China, Collaborative Innovation for Cancer Medicine, Guangzhou, Guangdong 510000, ChinaDepartment of Anesthesiology, Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in Southern China, Collaborative Innovation for Cancer Medicine, Guangzhou, Guangdong 510000, ChinaDepartment of Anesthesiology, Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in Southern China, Collaborative Innovation for Cancer Medicine, Guangzhou, Guangdong 510000, ChinaDepartment of Anesthesiology, Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in Southern China, Collaborative Innovation for Cancer Medicine, Guangzhou, Guangdong 510000, ChinaDepartment of Anesthesiology, Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in Southern China, Collaborative Innovation for Cancer Medicine, Guangzhou, Guangdong 510000, ChinaBackground: N6-Methyladenosine (m6A) RNA methylation of eukaryotic mRNA is involved in the progression of various tumors. We aimed to investigate m6A-related genes and m6A regulators in hepatocellular carcinoma (HCC) and their association with prognosis in HCC. Methods: We downloaded liver cancer sample data from The Cancer Genome Atlas (TCGA) and the International Cancer Genome Consortium database. A total of 21 m6A regulators and 1258 m6A-related genes were then analyzed by consensus clustering, Spearman’s correlation, GO, KEGG, LASSO Cox regression, and univariate Cox regression analyses. Finally, we constructed a risk prognostic model. Results: We obtained 192 candidate m6A-related genes and 3 m6A regulators, including YTHDF1, YTHDF2, and YTHDC1. The expression of these genes and regulators differed significantly in different stages of HCC. Based on Cox regression analysis, 19 of 98 m6A-related prognostic genes were obtained to construct a risk score model. The 1- and 3-year area under the curves (AUCs) among HCC patients were greater than 0.7. Finally, based on analysis of mutation differences between high- and low-risk score groups, we determined that TP53 had the highest mutation frequency in the high-risk HCC patient group, whereas titin (TTN) had the highest mutation frequency in the low-risk HCC patient group. Conclusion: This study comprehensively analyzed m6A regulators and m6A-related genes through an integrated bioinformatic analysis, including expression, clustering, protein–protein interaction, and prognosis, thus providing novel insights into the roles of m6A regulators and m6A-related genes in HCC.https://www.ingentaconnect.com/contentone/cscript/bioi/2021/00000002/00000003/art00002hepatocellular carcinomam6a-related genesm6a regulatorsprognosis |
| spellingShingle | Jingdun Xie Zhenhua Qi Xiaolin Luo Fang Yan Wei Xing Weian Zeng Dongtai Chen Qiang Li Integration Analysis of m6A Regulators and m6A-Related Genes in Hepatocellular Carcinoma BIO Integration hepatocellular carcinoma m6a-related genes m6a regulators prognosis |
| title | Integration Analysis of m6A Regulators and m6A-Related Genes in Hepatocellular Carcinoma |
| title_full | Integration Analysis of m6A Regulators and m6A-Related Genes in Hepatocellular Carcinoma |
| title_fullStr | Integration Analysis of m6A Regulators and m6A-Related Genes in Hepatocellular Carcinoma |
| title_full_unstemmed | Integration Analysis of m6A Regulators and m6A-Related Genes in Hepatocellular Carcinoma |
| title_short | Integration Analysis of m6A Regulators and m6A-Related Genes in Hepatocellular Carcinoma |
| title_sort | integration analysis of m6a regulators and m6a related genes in hepatocellular carcinoma |
| topic | hepatocellular carcinoma m6a-related genes m6a regulators prognosis |
| url | https://www.ingentaconnect.com/contentone/cscript/bioi/2021/00000002/00000003/art00002 |
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