Data and Detailed Methods Supporting Multi-compartment Metabolic Remodeling in DRA-Deficient Mice Overlaps with Ulcerative Colitis Metabolic Signatures

This repository contains detailed methods and study-specific derived data supporting the manuscript, “Multi-compartment Metabolic Remodeling in DRA-Deficient Mice Overlaps with Ulcerative Colitis Metabolic Signatures.” The deposited materials include mouse multi-omics sample metadata; mouse colonic RNA-seq differential-expression results and KEGG metabolism-focused analyses; processed untargeted LC–MS metabolomics tables for colonic mucosa, feces, and serum in positive- and negative-ion modes; targeted serum and fecal bile acid data; genus-level 16S rRNA microbiome data; MetOrigin metabolite-source attribution and host–microbiota co-metabolism results; transcriptome–metabolome pathway-level integration; and derived results from a six-cohort human ulcerative colitis analysis examining KEGG metabolic pathway alterations, SLC26A3/DRA expression, and within-UC DRA–pathway associations. Raw mouse colonic RNA-seq FASTQ files are available through the NCBI Sequence Read Archive under BioProject PRJNA1345427. Raw untargeted LC–MS metabolomics data are available through GNPS/MassIVE under accession MSV000099473 for positive-ion mode and MSV000099476 for negative-ion mode. Detailed statistical definitions, multiple-testing procedures, analysis parameters, and figure-specific significance criteria are provided in the accompanying Detailed Methods document.