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This review evaluates the potential of archived formalin\u2010fixed, paraffin\u2010embedded (FFPE) gut biopsies as a resource for translational and precision medicine, given their global availability and associated long\u2010term clinical data. Recent technical advances have expanded the molecular toolbox for FFPE samples to include proteomics, metabolomics, glycomics, spatial transcriptomics and characterising microbial components via 16S rRNA sequencing. Despite their potential, the use of FFPE materials is hindered using heterogeneous collection and storage methods. 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