ENAGenomicsMedical School, Huzhou Universityhttps://www.ebi.ac.uk/ena/browser/view/PRJNA1300441Homo sapiensThis study aims to identify immune-related genes in Autoimmune Hepatitis (AIH) by analyzing liver tissue transcriptomes. Bulk RNA sequencing was performed on liver biopsies from patients with AIH and two disease control groups: Primary Biliary Cholangitis (PBC) and Chronic Hepatitis B (CHB). Differential expression analysis was used to compare AIH against both control groups. By intersecting the resulting differentially expressed genes (DEGs) with immune gene databases, we identified 19 common immune-related DEGs (IRDEGs). Gene Ontology (GO) analysis of these genes highlighted functions related to lymphocyte-mediated immunity and T-cell receptor signaling. This dataset provides a resource for exploring liver gene expression changes in AIH. Overall design: Overall Design: Bulk RNA sequencing was used to compare liver tissue transcriptomes from three patient cohorts: Autoimmune Hepatitis (AIH), Primary Biliary Cholangitis (PBC), and Chronic Hepatitis B (CHB). Sample Processing and Sequencing: Total RNA was isolated from residual liver biopsy tissues. Strand-specific libraries were prepared using the Illumina TruSeq Stranded Total RNA kit and sequenced on an Illumina NovaSeq 6000 platform. Data Analysis: Differentially expressed genes (DEGs) between the AIH group and the two control groups (PBC and CHB) were identified using the DESeq2 R package. The significance threshold was set at a p-value 1.ENAfalseTranscriptome analysis of liver tissue from patients with Autoimmune Hepatitis, Primary Biliary Cholangitis, and Chronic Hepatitis BTranscriptome analysis of liver tissue from patients with Autoimmune Hepatitis, Primary Biliary Cholangitis, and Chronic Hepatitis B2025-09-242025-08-07PRJNA1300441GSE3043529606