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The Human Islet Research Network (HIRN) helps to organize and support collaborative research related to the loss of functional beta cell mass in Type 1 Diabetes. The datasets view is a list of datasets used by HIRN researchers. The "Name" column links to the HIRN individual dataset pages.
(last updated: Mar 7, 2022)
Data or Model Expression Gene Molecule| Name | Repository ID | Category | Description | Technology Type | Biosample Characteristics | Biosample Type | |
|---|---|---|---|---|---|---|---|
| Transcriptome of replicating beta-cells | Transcriptomics | RNA-seq assay | cell proliferation | type B pancreatic cell; mouse | PMID:26993067 | ||
| Global transcriptomic analysis of human pancreatic islets reveals novel genes influencing glucose metabolism | GSE50398 | Transcriptomics | PMID:33893274 | ||||
| Metabolomics data of Jurkat T cells | Metabolomics | Data generated for specific protocol of cellular metabolomic analysis for suspension-cultured mammalian cells | mass spectrometry assay | JURKAT cell; human | PMID:26401069 | ||
| Proteomics of non-diabetic donors (ND), non-diabetic donors with T1D-associated autoantibodies (AAb+), donors with T1D and donors with T2D | Proteomics | mass spectrometry assay | type 2 diabetes mellitus | pancreas; human | PMID:26302420 | ||
| ChIP-seq H3K27ac of control and cytokine-treated EndoC-βH1 cells and human islets | GSE133135 | Epigenomics | ChIP-seq of H3K27ac performed in control and cytokine-treated EndoC-βH1 cells and human pancreatic islets from non-diabetic cadaveric donors. | ChIP-seq assay | islet of Langerhans; human | PMID:31676868 | |
| RNA-seq of brefeldin A (BFA)-treated human islets in model of Golgi stress | GSE152615 | Transcriptomics | This includes 4 BFA-treated vs 4 control human pancreatic islet samples and identifies differentially expressed mRNA. | RNA-seq assay | islet of Langerhans; human | PMID:32820009 | |
| Glycoproteome of undifferentiated hESCs, hESC-derived pancreatic progenitors (PP) and hESC-derived polyhormonal (PH) cells | MSV000081178 | Proteomics | mass spectrometry assay | progenitor cell of endocrine pancreas; human | PMID:28835709 | ||
| Raw mass cytometry and imaging mass cytometry data of PBMCs from healthy donors | doi:10.17632/v58yj49pfr.1 | Cellomics | The data was used to develop the compensation tool available within the R package CATALYST. | high content screening | peripheral blood mononuclear cell; human | PMID:29605184 | |
| Proteomics of polymer encapsulated, human stem-cell derived beta-cells | Proteomics | mass spectrometry assay | functional beta cell like cell; human | PMID:26808346 | |||
| Expression profiling of 4 beta cell subtypes | GSE80780 | Transcriptomics | RNA-seq assay | type B pancreatic cell; human | PMID:27399229 | ||
| Processed/normalized expression data for 70 sphingolipid-related genes from isolated human islets from T1D, T2D, and control donors | Alternate accession | Transcriptomics | transcription profiling by array assay | type 1 diabetes mellitus | islet of Langerhans; human | PMID:29671030 | |
| Proteomics of sorted human alpha and beta cells | PXD011933 | Proteomics | FACS isolated human alpha and beta cells were analyzed by TMT 11-plex labeling, Off-line basic pH reversed phase fractionation and LC-MS3 on an Orbitrap Fusion mass spectrometer. | mass spectrometry assay | human | PMID:30760930 | |
| RNA-seq of human islets from five individual preparations exposed or not to IFN-gamma and IL-1beta for 48 h | GSE108413 | Transcriptomics | RNA-seq assay | islet of Langerhans; human | PMID:30078552 | ||
| New-Onset IgG Autoantibodies in Hospitalized Patients with COVID-19 [Autoantigen V2] | GSE180738 | Proteomics | We developed three different protein arrays to measure IgG autoantibodies associated with Connective Tissue Diseases (CTDs), Anti-Cytokine Antibodies (ACA), and anti-viral antibody responses in 147 hospitalized COVID-19 patients in three different centers. | PMID:34521836 | |||
| Single cell RNA-seq data of co-cultured ETV2 reset endothelial cells (R-VEC) | GSE148996 | Transcriptomics | Single cell RNA-sequencing analysis of ETV2 reset endothelial cells (R-VEC) co-cultured with human normal colon organoids (hCO) or human colorectal cancer organoids (hCRCO) utilizing 10x Chromium platform | RNA-seq assay | endothelial cell; human | PMID:32908310 | |
| Proteomics (phospho-antibody microarray) data for islets of control and Mettl14 knock-out mice | GSE132111 | Transcriptomics | To gain insights into the role of m6A in regulating the IGF1/insulin -> AKT - > PDX1 pathway and to dissect the signaling networks modulating AKT phosphorylation, freshly isolated islets from control and Mettl14 knock-out mice to phospho-antibody microarrays. | DNA methylation profiling by array assay | mouse | PMID:31867565 | |
| RNA-seq of mouse bone-marrow derived dendritic cells (mBMDC) stimulated with lipopolysaccharide, and droplet-based single-cell RNA-seq of ~1000 islet cells from non-diabetic biobreeding diabetes-resistant rat (BBDR) | GSE79651 | Transcriptomics | RNA-seq assay | islet of Langerhans; dendritic cell; mouse; rat | PMID:27470110 | ||
| RNA seq of pancreatic islet-derived beta cells, macrophages, and endothelial cells modulated by vascular endothelial growth factor-A signaling | GSE163825 | Transcriptomics | RNA profiles from islet-derived beta cells (12 samples), endothelial cells (10 samples), and macrophages (10 samples) from MIP-GFP; RIP-rtTA; TetO-VEGF-A mice with no doxycycline (Dox) treatment (12 samples), after 1 week of Dox (8 samples), and after 1 week of Dox withdrawal (12 samples); cells were isolated by fluorescence-activated cell sorting using GFP for beta cells (MIP-GFP) and antibodies against CD31 abd CD11b for endothelial cells and macrophages, respectively. See also GSE72546. | RNA-seq assay | macrophage; endothelial cell; type B pancreatic cell; mouse | PMID:33824346 | |
| Genotyping data of diabetes-risk variants for 1,946 research participants from the University of Florida Diabetes Institute (UFDI) cohort | Request | Genomics | (Data not deposited/available upon request.) Includes control subjects [type 1 diabetes-unaffected and non-first- or -second-degree relatives of type 1 diabetes patients] (n = 405), first-degree relatives with ≤1 type 1 diabetes-relevant autoantibody (AAb) (n = 790), second-degree relatives with ≤1 AAb (n = 68), multiple AAb positive at-risk relatives (≥2AAb + , n = 46), and type 1 diabetes patients (n = 637). The typed loci are those curated on immunobase.org as of October 2017. | genotyping by SNP array assay | human | PMID:29540798 | |
| Cardiomyocytes Infected by SARS-CoV-2 Recruit Cardiotoxic Macrophages [bulk RNA-seq dataset) | GSE151879 | Transcriptomics | Heart injury has been reported in up to 20% of COVID-19 patients, yet the cause of myocardial histopathology is unknown. We examined heart tissue from autopsies of healthy and COVID-19 patients using RNA-seq and identified a strikingly increased CCL2 expression and macrophage population in COVID-19 heart sample. Transwell assays using hESC-derived cardiomyocytes (CMs) and macrophages revealed that SARS-CoV-2 infected CMs secrete CCL2, which recruits macrophages, and this was validated using adult human CMs. Macrophages recruited by CCL2 from infected CMs secrete IL-6 and TNF-α, which causes increased ROS and cell apoptosis of CMs. Finally, a high content chemical screen using FDA-approved drugs identified ranolozine and tofacitinib, which rescue SARS-CoV-2 infected CMs from macrophages-induced cardiotoxicity. | PMID:34403650 |
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The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant 2U24DK097771-09.
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