DOI: 10.5281/zenodo.15588239
title: Single cell expression map of pancreatic islets using data from HPAP, IIDP and Prodo v1.0

description: Summary

This dataset represents the islet of Langerhans tissue from human samples contributed by HPAP, IIDP, and Prodo. It contains 565,388 cells profiled using 10x Genomics single-cell RNA sequencing. 

Key Fields:Dataset ID: islet_of_Langerhans_scRNA_v1  Tissue: Islet of Langerhans  Species: Human (Homo sapiens)  Platform: 10x Genomics  Method: scRNAseq  Total Cells: 565,388  Diseases: Diabetes  

The dataset is also available at:  [PanKbase Data Library (S3)](https://data.pankbase.org/matrix-files/PKBFI4385LQRF/)

Secondary Citations and Source Acknowledgments

This work used data acquired from the [Human Pancreas Analysis Program (HPAP)](https://hpap.pmacs.upenn.edu/) (RRID:SCR_016202), supported by the Human Islet Research Network (HIRN; RRID:SCR_014393), with funding from:- UC4-DK112217  - U01-DK123594  - UC4-DK112232  - U01-DK123716

Related Publications:- PMID: 31127054- PMID: 36206763- PMID: 35228745- PMID: 37188822

Additional islet samples and tissues were provided by the Integrated Islet Distribution Program (IIDP) (RRID:SCR_014387), funded by NIH Grant #2UC4DK098085.

Data from the following studies were used:

1] S. N. Shapira, A. Naji, M. A. Atkinson, A. C. Powers, and K. H. Kaestner, "Understanding islet dysfunction in type 2 diabetes through multidimensional pancreatic phenotyping: The Human Pancreas Analysis Program," Cell Metab., vol. 34, no. 12, pp. 1906–1913, Dec. 2022, doi: 10.1016/j.cmet.2022.09.013.[2]    K. H. Kaestner, A. C. Powers, A. Naji, HPAP Consortium, and M. A. Atkinson, "NIH Initiative to Improve Understanding of the Pancreas, Islet, and Autoimmunity in Type 1 Diabetes: The Human Pancreas Analysis Program (HPAP)," Diabetes, vol. 68, no. 7, pp. 1394–1402, Jul. 2019, doi: 10.2337/db19-0058.[3]    A. R. Patil, J. Schug, A. Naji, K. H. Kaestner, R. B. Faryabi, and G. Vahedi, "Single-cell expression profiling of islets generated by the Human Pancreas Analysis Program," Nat. Metab., vol. 5, no. 5, pp. 713–715, May 2023, doi: 10.1038/s42255-023-00806-x.[4]    M. Fasolino et al., "Single-cell multi-omics analysis of human pancreatic islets reveals novel cellular states in type 1 diabetes," Nat. Metab., vol. 4, no. 2, pp. 284–299, Feb. 2022, doi: 10.1038/s42255-022-00531-x.[5]    B. Marquina-Sanchez et al., "Single-cell RNA-seq with spike-in cells enables accurate quantification of cell-specific drug effects in pancreatic islets," Genome Biol., vol. 21, no. 1, p. 106, Dec. 2020, doi: 10.1186/s13059-020-02006-2.[6]    X. Tang et al., "SARS-CoV-2 infection induces beta cell transdifferentiation," Cell Metab., vol. 33, no. 8, pp. 1577-1591.e7, Aug. 2021, doi: 10.1016/j.cmet.2021.05.015.[7]    S. Shrestha et al., "Combinatorial transcription factor profiles predict mature and functional human islet α and β cells," JCI Insight, vol. 6, no. 18, p. e151621, Sep. 2021, doi: 10.1172/jci.insight.151621.[8]    G. Basile et al., "Excess pancreatic elastase alters acinar-β cell communication by impairing the mechano-signaling and the PAR2 pathways," Cell Metab., vol. 35, no. 7, pp. 1242-1260.e9, Jul. 2023, doi: 10.1016/j.cmet.2023.05.007.[9]    W. Xu et al., "Architecture of androgen receptor pathways amplifying glucagon-like peptide-1 insulinotropic action in male pancreatic β cells," Cell Rep., vol. 42, no. 5, p. 112529, May 2023, doi: 10.1016/j.celrep.2023.112529.[10]    R. B. Kang et al., "Single-nucleus RNA sequencing of human pancreatic islets identifies novel gene sets and distinguishes β-cell subpopulations with dynamic transcriptome profiles," Genome Med., vol. 15, no. 1, p. 30, May 2023, doi: 10.1186/s13073-023-01179-2.[11]    K. Bandesh et al., "Single-cell decoding of human islet cell type-specific alterations in type 2 diabetes reveals converging genetic- and state-driven β-cell gene expression defects," Jan. 22, 2025, Genomics. doi: 10.1101/2025.01.17.633590.[12]    J. S. Stancill, M. Y. Kasmani, W. Cui, and J. A. Corbett, "Single Cell RNAseq Analysis of Cytokine-Treated Human Islets: Association of Cellular Stress with Impaired Cytokine Responsiveness," Function, vol. 5, no. 4, p. zqae015, Jul. 2024, doi: 10.1093/function/zqae015.[13]    E. K. Sokolowski et al., "Multi-omic human pancreatic islet endoplasmic reticulum and cytokine stress response mapping provides type 2 diabetes genetic insights," Cell Metab., vol. 36, no. 11, pp. 2468-2488.e7, Nov. 2024, doi: 10.1016/j.cmet.2024.09.006.

License

CC-BY 4.0 International

Citation

Please cite this dataset using the DOI generated by Zenodo, all the Source Acknowledgment grants listed above, and the 13 primary studies that generated the data.