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However, the clinical significance of the TCR repertoire and its post\u2010treatment changes remain unclear in liver diseases.<\/jats:p><\/jats:sec><jats:sec><jats:title>Methods<\/jats:title><jats:p>We performed next\u2010generation sequencing (NGS)\u2010based TCR analysis using DNA obtained from peripheral blood mononuclear cells (PBMCs) of healthy donors (HD, <jats:italic>n<\/jats:italic>\u2009=\u20095), primary biliary cholangitis (PBC, <jats:italic>n<\/jats:italic>\u2009=\u20095), autoimmune hepatitis (AIH, <jats:italic>n<\/jats:italic>\u2009=\u20095), and hepatocellular carcinoma (HCC, <jats:italic>n<\/jats:italic>\u2009=\u20095) and evaluated the changes after treatment.<\/jats:p><\/jats:sec><jats:sec><jats:title>Results<\/jats:title><jats:p>Baseline TCR repertoire analysis demonstrated that TCR clonotype usage is restricted and diversity is low in all three disease groups (PBC, AIH, and HCC), particularly in PBC and AIH compared to HD (<jats:italic>p<\/jats:italic>\u2009&lt;\u20090.05). Following treatment, clonotype usage and diversity did not change significantly, except in AIH, where diversity decreased further (<jats:italic>p<\/jats:italic>\u2009&lt;\u20090.05 for clone Shannon diversity and clone evenness). Disease\u2010specific usage of TCR beta genes and specific changes after therapy were observed in all groups. Analysis of clonotypes shared with other individuals (public clonotypes) revealed that nine public clonotypes in PBC, eight in AIH, and eight in HCC disappeared after treatment. Motif analysis identified one characteristic motif (NQPQH) in PBC.<\/jats:p><\/jats:sec><jats:sec><jats:title>Conclusions<\/jats:title><jats:p>The diversity of the TCR repertoire, TCR beta chain usage, clonotypes, and motifs and their post\u2010treatment changes are disease\u2010specific in each liver disease, indicating that further TCR repertoire studies are needed to accelerate the understanding of liver disease pathogenesis from an immunological perspective.<\/jats:p><\/jats:sec>","DOI":"10.1111\/jgh.16835","type":"journal-article","created":{"date-parts":[[2024,12,2]],"date-time":"2024-12-02T08:13:50Z","timestamp":1733127230000},"page":"537-547","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":1,"title":["TCR Repertoire Analysis During Therapeutic Interventions in Liver Diseases Using Next\u2010Generation 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