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Series GSE137136 Query DataSets for GSE137136
Status Public on Sep 20, 2019
Title The impact of pro-inflammatory cytokines on the β-cell regulatory landscape provides insights into the genetics of type 1 diabetes
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Early stages of type 1 diabetes (T1D) are characterized by local autoimmune inflammation and progressive loss of insulin-producing pancreatic β cells. We show here that exposure to pro-inflammatory cytokines unmasks a marked plasticity of the β-cell regulatory landscape. We expand the repertoire of human islet regulatory elements by mapping stimulus-responsive enhancers linked to changes in the β-cell transcriptome, proteome and 3D chromatin structure. Our data indicates that the β cell response to cytokines is mediated by the induction of novel regulatory regions as well as the activation of primed regulatory elements pre-bound by islet-specific transcription factors. We found that T1D-associated loci are enriched of the newly mapped cis-regulatory regions and identify T1D-associated variants disrupting cytokine-responsive enhancer activity in human β cells. Our study illustrates how β cells respond to a pro-inflammatory environment and implicate a role for stimulus-response islet enhancers in T1D.
Overall design Five independent preparations of EndoC-βH1 cells examined under 2 conditions (control and pro-inflammatory cytokine exposure)
Contributor(s) Ramos-Rodríguez M, Turatsinze J, Pasquali L, Eizirik DL
Citation(s) 33281748, 36287121
Submission date Sep 09, 2019
Last update date Nov 02, 2022
Contact name Mireia Ramos-Rodríguez
Phone +34 93 557 28 13
Organization name Germans Trias i Pujol University Hospital and Research Institute
Department Division of Endocrinology
Lab Endocrine Regulatory Genomics Laboratory
Street address Carretera de Can Ruti, camí de les escoles s/n
City Badalona
ZIP/Postal code 08916
Country Spain
Platforms (1)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Samples (10)
GSM4067526 EndoC-βH1 cells preparation 1 under control condition
GSM4067527 EndoC-βH1 cells preparation 1 under cytokine treatment
GSM4067528 EndoC-βH1 cells preparation 2 under control condition
BioProject PRJNA564614
SRA SRP221142

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Supplementary file Size Download File type/resource
GSE137136_RAW.tar 2.3 Mb (http)(custom) TAR (of TXT)
GSE137136_matrix.htseq-count.txt.gz 667.2 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data provided as supplementary file

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