A spatial transcriptomics dataset of pancreas sections in normal glucose tolerance and type 2 diabetic donors
Understanding the spatial distribution of gene expression in the pancreas is essential for establishing the molecular basis of pancreatic function in healthy and disease contexts. Recent platforms offer a robust method for quantifying gene expression within a spatial context. Here, we report spatial transcriptomic profiling from pancreas samples obtained from three donors with type 2 diabetes (T2D) and three donors with normal glucose tolerance (NGT). Our analysis identified a major technical challenge: substantial transcript bleed of highly abundant genes (e.g., INS and GCG) into adjacent tissue regions. We demonstrate that this bleed can be computationally corrected using probabilistic models. Our analysis highlights the importance of incorporating bleed-correction techniques in the preprocessing of spatial transcriptomic profiling data. In summary, this study provides a dataset, methods, and resources to investigate the spatial regulation of gene expression in normal and T2D-affected human pancreas.
Authors
- D. Leland Taylor (ORCID: https://orcid.org/0000-0001-6498-6970)
- Narisu Narisu (ORCID: https://orcid.org/0000-0002-8483-1156)
- Neelam Sinha (ORCID: https://orcid.org/0000-0001-6496-224X)
- Michael R. Erdos (ORCID: https://orcid.org/0000-0002-6603-1833)
- Catherine C. Robertson (ORCID: https://orcid.org/0000-0002-1120-1786)
- Christopher H. Dampier (ORCID: https://orcid.org/0000-0003-3099-6462)
- Nick Howell
- Caleb M. Grenko (ORCID: https://orcid.org/0000-0002-3926-5503)
- Amy J. Swift
- Francis S. Collins (ORCID: https://orcid.org/0000-0002-1023-7410)
- Lori L. Bonnycastle (ORCID: https://orcid.org/0000-0003-0663-3944)
- Davide Randazzo (ORCID: https://orcid.org/0000-0002-2000-3060)
- Zoe Weiss (ORCID: https://orcid.org/0000-0003-2931-3660)
- Leslie G. Biesecker
Institutions
- National Institutes of Health (US)
- Mayo Clinic (US)
- University of Michigan (US)
- National Institute of Arthritis and Musculoskeletal and Skin Diseases (US)
- National Human Genome Research Institute (US)
- Mayo Clinic in Arizona (US)
- National Cancer Institute (US)
- Mayo Clinic in Florida (US)
Publication Details
- Journal
- Scientific Data
- Published
- 2025-09-01
- DOI
- https://doi.org/10.1038/s41597-025-05450-6
- Primary Topic
- Single-cell and spatial transcriptomics
- Type
- article
- Field-Weighted Citation Impact
- 0.00
Funders
- National Institutes of Health
- National Institute of Arthritis and Musculoskeletal and Skin Diseases