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Integrative analysis of bulk and single-cell RNA sequencing data reveals distinct subtypes of MAFLD based on N1-methyladenosine regulator expression

摘要Background:Metabolic dysfunction-associated fatty liver disease(MAFLD)is now the most prevalent chronic liver disease worldwide,with an increasing incidence rate.MAFLD is a heterogeneous disease that can have a low or high-risk profile for developing severe liver disease in its natural course.Recent evidence has highlighted the critical role of RNA methylation modification in the pathogenesis of various liver diseases.However,it remains unclear whether the RNA N1-methyladenosine(m1A)modification of immune cells could potentially contribute to the pathogenesis and heterogeneity of MAFLD.Materials and methods:To address this issue,we conducted an integrated bioinformatics analysis of MAFLD bulk and single-cell RNA sequencing(scRNA-seq)data to pinpoint m1A regulators in the network.This was followed by a description of the immune landscape,pathway enrichment analysis,and mo-lecular subtyping.Results:The expression patterns of m1A regulatory genes stratify MAFLD into two molecular subtypes,Cluster 1 and Cluster 2.These subtypes demonstrate different immune cell infiltration with distinct inflammation characteristics,which suggest different immune-inflammatory responses in the liver.Notably,Cluster 2 is associated with pro-inflammation and may be more likely to lead to progressive stages of MAFLD.Through intersection analysis of weighted gene co-expression network analysis(WGCNA)and m1A regulatory genes,three true hub genes(ALKBH1,YTHDC1,and YTHDF3)were iden-tified,all of which were strongly correlated with infiltrating immune cells.The specific signaling path-ways involved in the three core genes were derived from genomic variation analysis.Furthermore,scRNA-seq data from 33,168 cells from six liver samples identified 26 cell clusters and eight cell types,with endothelial cells,macrophages,and monocytes showing the most significant differences between MAFLD and normal controls.The cell-cell communication network between immune cells and non-parenchymal cells was extremely sophisticated and changed significantly in MAFLD.Conclusions:In summary,these findings demonstrate the involvement of m1A in MAFLD heterogeneity and emphasize the crucial role of m1A modulation of immune cells in regulating inflammation in MAFLD.These results may suggest potential therapeutic strategies for MAFLD.

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作者 Jinyong He [1] Cuicui Xiao [2] Cuiping Li [3] Fan Yang [4] Cong Du [1] 学术成果认领
作者单位 Cell-gene Therapy Translational Medicine Research Center,The Third Affiliated Hospital of Sun Yat-sen University,Guangzhou,Guangdong,China;Biotherapy Center,The Third Affiliated Hospital of Sun Yat-sen University,Guangzhou,Guangdong,China;Guangdong Province Key Laboratory of Liver Disease Research,The Third Affiliated Hospital of Sun Yat-sen University,Guangzhou,Guangdong,China [1] Guangdong Province Key Laboratory of Liver Disease Research,The Third Affiliated Hospital of Sun Yat-sen University,Guangzhou,Guangdong,China;Department of Anesthesiology,The Third Affiliated Hospital of Sun Yat-sen University,Guangzhou,Guangdong,China [2] Cell-gene Therapy Translational Medicine Research Center,The Third Affiliated Hospital of Sun Yat-sen University,Guangzhou,Guangdong,China;Biotherapy Center,The Third Affiliated Hospital of Sun Yat-sen University,Guangzhou,Guangdong,China [3] Cell-gene Therapy Translational Medicine Research Center,The Third Affiliated Hospital of Sun Yat-sen University,Guangzhou,Guangdong,China;Biotherapy Center,The Third Affiliated Hospital of Sun Yat-sen University,Guangzhou,Guangdong,China;Department of Infectious Diseases,The First People's Hospital of Kashi,The Affiliated Kashi Hospital of Sun Yat-sen University,Kashi,Xinjiang,China [4]
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DOI 10.1016/j.livres.2023.06.001
发布时间 2023-09-26(万方平台首次上网日期,不代表论文的发表时间)
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肝脏研究(英文)

肝脏研究(英文)

2023年7卷2期

145-155页

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