Lessons From Transcriptome Analysisof Autoimmune Diseases

Frontiers in Immunology

Keishi Fujio¹  Yasuo Nagafuchi²  Haruyuki Yanaoka³ 

[1] Department of Allergy and Rheumatology, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan;Department of Functional Genomics and Immunological Diseases, Graduate School of Medicine, The University of Tokyo, Tokyo, Japan;Immuno-Rheumatology Center, St. Luke’s International Hospital, St. Luke’s International University, Tokyo, Japan;

关键词: transcriptome;    eQTL;    autoimmune disease;    immune cell;    monocytes;    macrophages;   

DOI  :  10.3389/fimmu.2022.857269

来源: DOAJ

【 摘 要 】

Various immune cell types, including monocytes, macrophages, and adaptive immune T and B cells, play major roles in inflammation in systemic autoimmune diseases. However, the precise contribution of these cells to autoimmunity remains elusive. Transcriptome analysis has added a new dimension to biology and medicine. It enables us to observe the dynamics of gene expression in different cell types in patients with diverse diseases as well as in healthy individuals, which cannot be achieved with genomic information alone. In this review, we summarize how transcriptome analysis has improved our understanding of the pathological roles of immune cells in autoimmune diseases with a focus on the ImmuNexUT database we reported. We will also discuss the common experimental and analytical design of transcriptome analyses. Recently, single-cell RNA-seq analysis has provided atlases of infiltrating immune cells, such as pro-inflammatory monocytes and macrophages, peripheral helper T cells, and age or autoimmune-associated B cells in various autoimmune disease lesions. With the integration of genomic data, expression quantitative trait locus (eQTL) analysis can help identify candidate causal genes and immune cells. Finally, we also mention how the information obtained from these analyses can be used practically to predict patient prognosis.

【 授权许可】

Unknown