A spatial transcriptomics atlas of live donors reveals unique zonation patterns in the healthy human liver

DOI10.5281/zenodo.14795740Zenodo14795740MaRDI QIDQ6725326FDOQ6725326

Dataset published at Zenodo repository.

Publication date: 10 December 2024

Copyright license: Creative Commons Attribution 4.0 International

We performed 10x Visium spatial transcriptomics on 16 adult human liver samples: eight from young, healthy, living donors (marked as 'M') and eight from patients with liver pathology, where we sampled adjacent normal tissue (marked as 'P') to construct a spatial expression atlas of the adult human liver.To achieve higher spatial resolution, we also applied high-definition Visium HD measurements to two liver sections from young, healthy, living donors (M2 and M6). To compare human liver zonation profiles with those of other mammals, we assembled a spatial transcriptomics dataset from three additional mammalian species with body sizes and metabolic rates more comparable to human: wild boar (n=2. marked as 'non+human_P'), cow (n=2. marked as 'non+human_C'), and domesticated pig (n=3. marked as 'non+human_PD'). For human Visium samples (n=16. M1, M2, M3, M4, M5, M6, M7, M8, P2, P3, P6, P7, P14, P17, P18 and P21) and non-human Visium samples (n=7. C1, C2, P1, P2, PD1, PD2 and PD3) the following files were uploaded: Metadata: Human samples metadata file. Non-human metadata file. For each Visium sample individually: counts_ALL.csv counts_UTT.csv scalefactors_json.json tissue_hires_image.png tissue_positions_list.csv cloupe file filtered_feature_bc_matrix.h5 raw_feature_bc_matrix.h5 For M2 and M6 Visium HD samples: cloupe file

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