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Series GSE152615 Query DataSets for GSE152615
Status Public on Sep 17, 2020
Title RNAseq from human islets treated with brefeldin A as a model of Golgi stress
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Type 1 diabetes (T1D) is characterized by immune mediated destruction of insulin producing β cells. Biomarkers capable of identifying T1D risk and dissecting disease-related heterogeneity represent an unmet clinical need. Aims: Towards the goal of informing T1D biomarker strategies, we profiled different classes of RNAs in human islet-derived exosomes and identified RNAs that were differentially expressed under cytokine stress conditions. Human pancreatic islets were obtained from cadaveric donors and treated with/without IL-1β and IFN-γ to mimic the pro-inflammatory T1D milieu. Total RNA and small RNA sequencing were performed to identify long (mRNA and long non-coding RNAs) and different classes of small non-coding RNAs. RNAs with fold change ≥ 1.3 and p-value < 0.05 were considered as differentially expressed. mRNAs and miRNAs species represented the most abundant long and small RNA species, respectively. Expression patterns of each class of RNA were changed with cytokine treatment. Differentially expressed long RNAs and targets of small non-coding RNAs were predicted to be involved in insulin secretion, calcium signaling, necrosis and apoptosis. Our data provides the first comprehensive catalog of protein coding and non-coding RNAs in human islet-derived exosomes and identifies RNAs that are dysregulated under cytokine stress.
 
Overall design Identification of differentially expressed mRNA from Brefeldin A treated vs. control human pancreatic islets.
 
Contributor(s) Evans-Molina C, Bone RN, Syed F, Wu H, Krishnan P, Selvaraj S, Talware S
Citation(s) 32820009
Submission date Jun 16, 2020
Last update date Sep 18, 2020
Contact name Carmella Evans-Molina
E-mail(s) cevansmo@iupui.edu
Organization name Indiana University School of Medicine
Street address MS2059 Barnhill Drive
City Indianapolis
State/province Indiana
ZIP/Postal code 46202
Country USA
 
Platforms (1)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (8)
GSM4618781 Pancreatic islet, HI-042519-DMSO
GSM4618782 Pancreatic islet, HI-042519-BFA
GSM4618783 Pancreatic islet, HI-043019-DMSO
Relations
BioProject PRJNA639829
SRA SRP267552

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE152615_DE_gene_list.xlsx 605.9 Kb (ftp)(http) XLSX
GSE152615_FPKM_normalized_log_transformed.txt.gz 883.9 Kb (ftp)(http) TXT
GSE152615_Rawcounts_filtered.txt.gz 652.9 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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