Transcriptome analysis of liver tissue from patients with Autoimmune Hepatitis, Primary Biliary Cholangitis, and Chronic Hepatitis B

This 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: 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 < 0.05 and an absolute log2 fold change > 1.