DOE OSTI · 3366498
Multi-omics data resource: Data package 22 (Pck022)
Abstract
In type 1 diabetes (T1D), autoimmune response and inflammation cause the death of pancreatic ß cells, leading to the body’s inability to produce insulin and maintain glucose homeostasis. This process is at least in part mediated by pro-inflammatory cytokines, such as interferon (IFN)a, IFN?, interleukin (IL)-1ß, and tumor necrosis factor (TNF)a, which induce ß-cell dysfunction and apoptosis. A deep understanding of the ß-cell signaling and regulatory networks induced by these cytokines could lead to the identification of therapeutic targets to prevent T1D development. To study cytokine-mediated islets/ß-cell signaling and regulatory networks, a variety of omics experiments have been conducted, including transcriptomics, epigenomics (DNA methylation, UMI-4C, ATAC-seq & ChIP-seq), proteomics (bottom-up, top-down, post-translational modification analysis), lipidomics, and metabolomics. The combination of these datasets can be instrumental in identifying signaling components and regulatory factors involved in ß-cell stress/death. Here, we aggregated these multiple omics datasets into a centralized location, providing a quality-controlled and statistically rigorous resource for investigators seeking to holistically study ß-cell regulation by pro-inflammatory cytokines. The data package consists of isolated pancreatic islets from adult male C57BL6/J mice treated with IL-1β, IFNγ or IL-1β + IFNγ for 6 h and submitted for scRNA-seq. This study focused on understanding the heterogeneity of the cytokine-mediated response. Data contributors: Jennifer S Stancill & John A Corbett: Department of Biochemistry, Medical College of Wisconsin, Milwaukee, WI, USA Data repository: GSE156175 Publication: 10.26508/lsa.202000949
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Sarkar, Soumyadeep [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)], Flores, Javier E [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)], Nune, Navaj [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)], Ramos-Rodriguez, Mireia, Kulkarni, Abhishek, Ives, Ashley N [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)], Hammoud, Batoul, Wu, Wenting, Yi, Xiaoyan, Roca-Rivada, Arturo, Maestas, Marlie M, Gluth, Austin, Elliott, Emily C [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)], You, Youngki [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)], Krishnan, Preethi, Syed, Farooq, Kim, Young-Mo [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)] (ORCID:0000000289727593), Kyle, Jennifer E [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)], Kono, Tatsuyoshi, Fulcher, James M [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)], Sims, Emily K, Tersey, Sarah A, Sussel, Lori, Webb-Robertson, Bobbie-Jo Mary [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)], Qian, Weijun [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)] (ORCID:0000000253932827), Zhang, Tong [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)], Metz, Thomas O [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)] (ORCID:0000000160493968), Millman, Jeffrey R, Evans-Molina, Carmella, Pasquali, Lorenzo, Mirmira, Raghavendra G, Eizirik, Decio L, Nakayasu, Ernesto S [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)] (ORCID:0000000240562695). 2026-05-25. Multi-omics data resource: Data package 22 (Pck022). https://doi.org/10.25584/3366498
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