NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE133218 Query DataSets for GSE133218
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]
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 5 independent experiments of the human beta cell line EndoC-BH1 cells exposed or not to intereron-alpha for 2, 8 and 24h.
 
Contributor(s) Eizirik DL, Colli ML
Citation(s) 32444635, 33042023, 33281748
Submission date Jun 24, 2019
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 (30)
GSM3902469 RNA-seq_Experiment 1 - control condition (2h)
GSM3902470 RNA-seq_Experiment 2 - control condition (2h)
GSM3902471 RNA-seq_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 PRJNA550411
SRA SRP211834

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
GSE133218_RAW.tar 126.4 Mb (http)(custom) TAR (of GTF)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap