DOE OSTI · 3012074
Multi-omics data compendium: Data package 7 (Pck007)
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.
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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 [University Pompeu Fabra], Kulkarni, Abhishek [University of Chicago], Ives, Ashley N [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)], Hammoud, Batoul [University of Chicago], Wu, Wenting [Indiana University School of Medicine], Yi, Xiaoyan [ULB], Roca-Rivada, Arturo [Université Libre de Bruxelles], Maestas, Marlie M [Washington University School of Medicine], Gluth, Austin [Washington State University Tri-Cities], 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 [Indiana University School of Medicine], Syed, Farooq [Indiana University School of Medicine], 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 [Indiana University School of Medicine], Fulcher, James M [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)], Sims, Emily K [Indiana University School of Medicine], Tersey, Sarah A [University of Chicago], Sussel, Lori [University of Colorado], Webb-Robertson, Bobbie-Jo M [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 [Washington University School of Medicine], Evans-Molina, Carmella [Indiana University School of Medicine], Pasquali, Lorenzo [University Pompeu Fabra], Mirmira, Raghavendra G [University of Chicago], Eizirik, Decio L [Université Libre de Bruxelles], Nakayasu, Ernesto S [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)] (ORCID:0000000240562695). 2025-12-29. Multi-omics data compendium: Data package 7 (Pck007). https://doi.org/10.25584/3012074
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