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Series GSE148058 Query DataSets for GSE148058
Status Public on Apr 15, 2020
Title An integrated multi-omics approach identifies the landscape of interferon-a-mediated responses of human pancreatic beta cells [RNA-seq 2]
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Proinflammatory cytokines are important mediators of pancreatic beta cell dysfunction and demise in type 1 diabetes (T1D). We presently characterized human beta cell responses to IFNa by combining ATAC-seq, RNA-seq and proteomics assays. The initial beta cell response to IFNa was characterized by major chromatin remodeling, followed by marked changes in transcriptional and translational regulation. IFNa-induced changes in alternative splicing (AS) and first exon usage increased the diversity of transcripts expressed by beta cells. This, combined with changes observed on protein modification/degradation, ER stress and MHC class I, may significantly expand the peptide repertoire presented by beta cells to the immune system. On the other hand, beta cells up-regulated checkpoint proteins, such as PDL1 and HLA-E, that may protect them against the autoimmune assault. Data mining of the present multi-omics analysis led to the identification of two compound classes that revert IFNa effects on human beta cells and may be translated to clinical trials.
 
Overall design RNA-sequencing of 6 independent experiments of the pancreatic human islets exposed or not to intereron-alpha for 2, 8 and 18h.
 
Contributor(s) Eizirik DL, Colli ML
Citation(s) 32444635, 33042023, 33281748
Submission date Apr 03, 2020
Last update date Dec 08, 2020
Contact name Maikel Luis Colli
E-mail(s) mcolli@ulb.ac.be
Organization name Universite Libre de Bruxelles
Department Faculty of Medicine
Lab Center for Diabetes Research
Street address Route de Lennik, 808
City Brussels
ZIP/Postal code 1070
Country Belgium
 
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (36)
GSM4453199 Experiment 1 - control condition (2h)
GSM4453200 Experiment 2 - control condition (2h)
GSM4453201 Experiment 3 - control condition (2h)
This SubSeries is part of SuperSeries:
GSE133221 An integrated multi-omics approach identifies the landscape of interferon-a-mediated responses of human pancreatic beta cells
Relations
BioProject PRJNA622979
SRA SRP255175

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE148058_RAW.tar 329.4 Mb (http)(custom) TAR (of GTF)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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