RNA-seq data and files from the mouse RNA-seq studies.

For the transcriptomic profiling of hepatic and adipose tissues, total RNA was extracted from flash-frozen samples using the RNeasy Mini Kit (Qiagen) according to the manufacturer’s instructions. RNA concentration and purity were assessed using a NanoDrop spectrophotometer, while RNA integrity (RIN) was verified using an Agilent 2100 Bioanalyzer to ensure high-quality material for library preparation. The purified RNA samples were submitted to the UC Davis Mouse Metabolic Phenotyping Center (MMPC) Genomics Core for specialized sequencing services. Library preparation was performed using the Illumina Stranded mRNA Prep kit to capture the protein-coding transcriptome. Following library construction and quality control, sequencing was executed on the Illumina NovaSeq 6000 platform, generating 150-bp paired-end reads with a target depth of approximately 25–30 million reads per sample. The resulting raw sequencing data (FASTQ files) were processed through a standardized bioinformatics pipeline. Initial quality assessment was performed using FastQC, followed by the trimming of adapter sequences and low-quality bases using Trimmomatic. Reads were aligned to the Mus musculus reference genome (mm10) using the STAR (Spliced Transcripts Alignment to a Reference) aligner. Gene-level quantification was performed using featureCounts, and differential gene expression analysis was conducted using the DESeq2 package in R. Genes were considered significantly differentially expressed if they met a threshold of an adjusted p-value (FDR) 1.0.