Scientific Data (May 2023)
A genomic data archive from the Network for Pancreatic Organ donors with Diabetes
- Daniel J. Perry,
- Melanie R. Shapiro,
- Sonya W. Chamberlain,
- Irina Kusmartseva,
- Srikar Chamala,
- Leandro Balzano-Nogueira,
- Mingder Yang,
- Jason O. Brant,
- Maigan Brusko,
- MacKenzie D. Williams,
- Kieran M. McGrail,
- James McNichols,
- Leeana D. Peters,
- Amanda L. Posgai,
- John S. Kaddis,
- Clayton E. Mathews,
- Clive H. Wasserfall,
- Bobbie-Jo M. Webb-Robertson,
- Martha Campbell-Thompson,
- Desmond Schatz,
- Carmella Evans-Molina,
- Alberto Pugliese,
- Patrick Concannon,
- Mark S. Anderson,
- Michael S. German,
- Chester E. Chamberlain,
- Mark A. Atkinson,
- Todd M. Brusko
Affiliations
- Daniel J. Perry
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- Melanie R. Shapiro
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- Sonya W. Chamberlain
- Diabetes Center, School of Medicine, University of California San Francisco
- Irina Kusmartseva
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- Srikar Chamala
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- Leandro Balzano-Nogueira
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- Mingder Yang
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- Jason O. Brant
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- Maigan Brusko
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- MacKenzie D. Williams
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- Kieran M. McGrail
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- James McNichols
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- Leeana D. Peters
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- Amanda L. Posgai
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- John S. Kaddis
- Department of Diabetes and Cancer Discovery Science, Arthur Riggs Diabetes and Metabolism Research Institute, Beckman Research Institute, City of Hope
- Clayton E. Mathews
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- Clive H. Wasserfall
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- Bobbie-Jo M. Webb-Robertson
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- Martha Campbell-Thompson
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- Desmond Schatz
- Department of Pediatrics, Diabetes Institute, College of Medicine, University of Florida
- Carmella Evans-Molina
- Center for Diabetes and Metabolic Diseases and the Wells Center for Pediatric Research, Indiana University School of Medicine
- Alberto Pugliese
- Diabetes Research Institute, Department of Medicine, Division of Endocrinology, Diabetes and Metabolism, Department of Microbiology and Immunology, Miller School of Medicine, University of Miami
- Patrick Concannon
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- Mark S. Anderson
- Diabetes Center, School of Medicine, University of California San Francisco
- Michael S. German
- Diabetes Center, School of Medicine, University of California San Francisco
- Chester E. Chamberlain
- Diabetes Center, School of Medicine, University of California San Francisco
- Mark A. Atkinson
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- Todd M. Brusko
- Department of Pathology, Immunology and Laboratory Medicine, Diabetes Institute, College of Medicine, University of Florida
- DOI
- https://doi.org/10.1038/s41597-023-02244-6
- Journal volume & issue
-
Vol. 10,
no. 1
pp. 1 – 16
Abstract
Abstract The Network for Pancreatic Organ donors with Diabetes (nPOD) is the largest biorepository of human pancreata and associated immune organs from donors with type 1 diabetes (T1D), maturity-onset diabetes of the young (MODY), cystic fibrosis-related diabetes (CFRD), type 2 diabetes (T2D), gestational diabetes, islet autoantibody positivity (AAb+), and without diabetes. nPOD recovers, processes, analyzes, and distributes high-quality biospecimens, collected using optimized standard operating procedures, and associated de-identified data/metadata to researchers around the world. Herein describes the release of high-parameter genotyping data from this collection. 372 donors were genotyped using a custom precision medicine single nucleotide polymorphism (SNP) microarray. Data were technically validated using published algorithms to evaluate donor relatedness, ancestry, imputed HLA, and T1D genetic risk score. Additionally, 207 donors were assessed for rare known and novel coding region variants via whole exome sequencing (WES). These data are publicly-available to enable genotype-specific sample requests and the study of novel genotype:phenotype associations, aiding in the mission of nPOD to enhance understanding of diabetes pathogenesis to promote the development of novel therapies.
