GeoMx Human Whole Transcriptome Atlas profiling on at-risk MASH F3 patients

Integrated multi-omics identifies distinct macrophage alterations during progression of metabolic dysfunction-associated steatohepatitis GeoMx Human Whole Transcriptome Atlas profiling (Bruker Spatial Biology) was performed on a cohort of eight Formalin-Fixed Paraffin-Embedded biopsies from ‘at-risk’ MASH fibrosis stage F3 patients. Patients were classified as ‘at risk’ MASH if they have a MASH combined with a fibrosis stage of at least 2 and a MASLD Activity Score ≥4 (MAS; this is the sum of the histological scores for steatosis, hepatocyte ballooning and lobular inflammation). Regions were selected based on specific histopathological criteria and fluorescent markers were employed to segment different macrophage (CD68), immune cell (CD45), and epithelial (Pan-keratin (panCK)) cell populations in a sequential manner. Whole Transcriptome Atlas RNA profiling was performed on a total of 80 segments. Information on regions of interest can be found in the annotation file and images. A minimum of 200 nucleated cells were recommended per region of interest to process for segmentation.