{"title":"生物信息学与实验验证相结合,探索 HBV 相关急性肝衰竭的乳酸化相关生物标志物","authors":"Hao Pei, Yue‐qiao Chen, Feng‐lan Wu, Yan‐yan Zhang, Xue Zhang, Jian‐yu Li, Li‐yi Pan, Yu Chen, Yu‐wen Huang","doi":"10.1111/jgh.16739","DOIUrl":null,"url":null,"abstract":"Background and AimCurrently, hepatitis B virus‐related acute liver failure (HBV‐ALF) has limited treatment options. Studies have shown that histone lactylation plays a role in the progression of liver‐related diseases. Therefore, it is essential to explore lactylation‐related gene (LRGs) biomarkers in HBV‐ALF to provide new information for the treatment of HBV‐ALF.MethodsTwo HBV‐ALF‐related datasets (GSE38941 and GSE14668) and 65 LRGs were used. First, the differentially expressed genes (DEGs) were derived from differential expression analysis, the key module genes from weighted gene co‐expression network analysis; and LRGs were used to intersect to obtain the candidate genes. Subsequently, the feature genes obtained from least absolute shrinkage and selection operator regression analysis and support vector machine analysis were intersected to obtain the candidate key genes. Among them, genes with consistent and significant expression trends in both GSE38941 and GSE14668 were used as biomarkers. Subsequently, biomarkers were analyzed for functional enrichment, immune infiltration, and sensitive drug prediction.ResultsIn this study, five candidate genes (<jats:italic>PIGM</jats:italic>, <jats:italic>PIGA</jats:italic>, <jats:italic>EGR1</jats:italic>, <jats:italic>PIGK</jats:italic>, and <jats:italic>PIGL</jats:italic>) were identified by intersecting 6461 DEGs and 2496 key module genes with 65 LRGs. We then screened four candidate key genes from the machine learning algorithm, among which <jats:italic>PIGM</jats:italic> and <jats:italic>PIGA</jats:italic> were considered biomarkers in HBV‐ALF. Moreover, the results of enrichment analysis showed that the significant enrichment signaling pathways for biomarkers included allograft rejection and valine, leucine, and isoleucine degradation. Thereafter, 11 immune cells differed significantly between groups, with resting memory CD4+ T cells having the strongest positive correlation with biomarkers. Methylphenidate hydrochloride is a potential therapeutic drug for <jats:italic>PIGM</jats:italic>.ConclusionTwo genes, <jats:italic>PIGM</jats:italic> and <jats:italic>PIGA</jats:italic>, were identified as biomarkers related to LRGs in HBV‐ALF, providing a basis for understanding HBV‐ALF pathogenesis.","PeriodicalId":15877,"journal":{"name":"Journal of Gastroenterology and Hepatology","volume":"65 1","pages":""},"PeriodicalIF":3.7000,"publicationDate":"2024-09-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Bioinformatics and experimental validation were combined to explore lactylation‐related biomarkers in HBV‐associated acute liver failure\",\"authors\":\"Hao Pei, Yue‐qiao Chen, Feng‐lan Wu, Yan‐yan Zhang, Xue Zhang, Jian‐yu Li, Li‐yi Pan, Yu Chen, Yu‐wen Huang\",\"doi\":\"10.1111/jgh.16739\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"Background and AimCurrently, hepatitis B virus‐related acute liver failure (HBV‐ALF) has limited treatment options. Studies have shown that histone lactylation plays a role in the progression of liver‐related diseases. Therefore, it is essential to explore lactylation‐related gene (LRGs) biomarkers in HBV‐ALF to provide new information for the treatment of HBV‐ALF.MethodsTwo HBV‐ALF‐related datasets (GSE38941 and GSE14668) and 65 LRGs were used. First, the differentially expressed genes (DEGs) were derived from differential expression analysis, the key module genes from weighted gene co‐expression network analysis; and LRGs were used to intersect to obtain the candidate genes. Subsequently, the feature genes obtained from least absolute shrinkage and selection operator regression analysis and support vector machine analysis were intersected to obtain the candidate key genes. Among them, genes with consistent and significant expression trends in both GSE38941 and GSE14668 were used as biomarkers. Subsequently, biomarkers were analyzed for functional enrichment, immune infiltration, and sensitive drug prediction.ResultsIn this study, five candidate genes (<jats:italic>PIGM</jats:italic>, <jats:italic>PIGA</jats:italic>, <jats:italic>EGR1</jats:italic>, <jats:italic>PIGK</jats:italic>, and <jats:italic>PIGL</jats:italic>) were identified by intersecting 6461 DEGs and 2496 key module genes with 65 LRGs. We then screened four candidate key genes from the machine learning algorithm, among which <jats:italic>PIGM</jats:italic> and <jats:italic>PIGA</jats:italic> were considered biomarkers in HBV‐ALF. Moreover, the results of enrichment analysis showed that the significant enrichment signaling pathways for biomarkers included allograft rejection and valine, leucine, and isoleucine degradation. Thereafter, 11 immune cells differed significantly between groups, with resting memory CD4+ T cells having the strongest positive correlation with biomarkers. Methylphenidate hydrochloride is a potential therapeutic drug for <jats:italic>PIGM</jats:italic>.ConclusionTwo genes, <jats:italic>PIGM</jats:italic> and <jats:italic>PIGA</jats:italic>, were identified as biomarkers related to LRGs in HBV‐ALF, providing a basis for understanding HBV‐ALF pathogenesis.\",\"PeriodicalId\":15877,\"journal\":{\"name\":\"Journal of Gastroenterology and Hepatology\",\"volume\":\"65 1\",\"pages\":\"\"},\"PeriodicalIF\":3.7000,\"publicationDate\":\"2024-09-17\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Journal of Gastroenterology and Hepatology\",\"FirstCategoryId\":\"3\",\"ListUrlMain\":\"https://doi.org/10.1111/jgh.16739\",\"RegionNum\":3,\"RegionCategory\":\"医学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q2\",\"JCRName\":\"GASTROENTEROLOGY & HEPATOLOGY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Gastroenterology and Hepatology","FirstCategoryId":"3","ListUrlMain":"https://doi.org/10.1111/jgh.16739","RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q2","JCRName":"GASTROENTEROLOGY & HEPATOLOGY","Score":null,"Total":0}
Bioinformatics and experimental validation were combined to explore lactylation‐related biomarkers in HBV‐associated acute liver failure
Background and AimCurrently, hepatitis B virus‐related acute liver failure (HBV‐ALF) has limited treatment options. Studies have shown that histone lactylation plays a role in the progression of liver‐related diseases. Therefore, it is essential to explore lactylation‐related gene (LRGs) biomarkers in HBV‐ALF to provide new information for the treatment of HBV‐ALF.MethodsTwo HBV‐ALF‐related datasets (GSE38941 and GSE14668) and 65 LRGs were used. First, the differentially expressed genes (DEGs) were derived from differential expression analysis, the key module genes from weighted gene co‐expression network analysis; and LRGs were used to intersect to obtain the candidate genes. Subsequently, the feature genes obtained from least absolute shrinkage and selection operator regression analysis and support vector machine analysis were intersected to obtain the candidate key genes. Among them, genes with consistent and significant expression trends in both GSE38941 and GSE14668 were used as biomarkers. Subsequently, biomarkers were analyzed for functional enrichment, immune infiltration, and sensitive drug prediction.ResultsIn this study, five candidate genes (PIGM, PIGA, EGR1, PIGK, and PIGL) were identified by intersecting 6461 DEGs and 2496 key module genes with 65 LRGs. We then screened four candidate key genes from the machine learning algorithm, among which PIGM and PIGA were considered biomarkers in HBV‐ALF. Moreover, the results of enrichment analysis showed that the significant enrichment signaling pathways for biomarkers included allograft rejection and valine, leucine, and isoleucine degradation. Thereafter, 11 immune cells differed significantly between groups, with resting memory CD4+ T cells having the strongest positive correlation with biomarkers. Methylphenidate hydrochloride is a potential therapeutic drug for PIGM.ConclusionTwo genes, PIGM and PIGA, were identified as biomarkers related to LRGs in HBV‐ALF, providing a basis for understanding HBV‐ALF pathogenesis.
期刊介绍:
Journal of Gastroenterology and Hepatology is produced 12 times per year and publishes peer-reviewed original papers, reviews and editorials concerned with clinical practice and research in the fields of hepatology, gastroenterology and endoscopy. Papers cover the medical, radiological, pathological, biochemical, physiological and historical aspects of the subject areas. All submitted papers are reviewed by at least two referees expert in the field of the submitted paper.