A Bioengineered 3D Human Liver Model for Investigating Acute and Chronic Drug-Induced Hepatotoxicity and Fibrosis Description of the Work This dataset includes all raw and processed data generated during the development, validation, and experimental analysis of a 3D bioengineered human liver model designed to study acute and chronic drug-induced hepatotoxicity and fibrosis. The platform consists of co-cultured human hepatocytes (HepaRG), hepatic stellate cells (LX-2), and immune cells (THP-1 monocytes) encapsulated within a gelatin methacryloyl (GelMA) and carboxymethyl cellulose methacrylate (CMCMA) hydrogel matrix. The dataset encompasses transcriptomic profiles (RNA-seq), quantitative PCR gene expression, cell viability assays, metabolic enzyme activities, immunofluorescence images, fibrosis marker quantification, and inflammatory signaling data following pharmacological challenges with lipopolysaccharide (LPS), paracetamol, and dexamethasone. Datasets are provided for time-course experiments representing both acute and chronic liver injury and for the evaluation of anti-inflammatory drug response. The repository also includes methodological metadata for all reagents, cell lines, antibodies, and experimental protocols in accordance with CTAT (Complete, Transparent, Accurate, Timely) standards. These resources enable full reproducibility and allow other investigators to replicate, validate, and extend the findings reported in the associated publication. Data Types Provided Raw and processed RNA-seq files (FASTQ, counts, and normalized expression tables) qPCR results (gene expression tables and raw Ct values) Cell viability and metabolic activity data from MTS and Live/Dead assays Imaging data (fluorescent and confocal microscopy files) Protein biomarker ELISA results (PINP, PIIINP, ammonia) CYP3A4 activity assays Cytokine quantification (Luminex multiplex assay) Protocol documents for hydrogel fabrication, cell culture, drug treatment, sample processing, and data analysis Potential Uses Benchmarking and comparison of liver-on-chip models Toxicology and drug safety studies Fibrosis, inflammation, and liver disease mechanism research Bioinformatics pathway analysis and computational modeling Methods validation and protocol optimization Associated Publication This dataset supports the findings of: Ferret-Miñana, A., Alcaraz, E., Horrillo, R., Ramón-Azcón, J., De Chiara, F., et al. “A 3D Bioengineered Human Liver for the Study of Acute and Chronic Drug-Induced Hepatotoxicity and Fibrosis,” JHEP Reports, 2025.