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Series GSE84133 Query DataSets for GSE84133
Status Public on Sep 26, 2016
Title A single-cell transcriptomic map of the human and mouse pancreas reveals inter- and intra-cell population structure
Organisms Homo sapiens; Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary While the function of the mammalian pancreas hinges on complex interactions of distinct cell types, gene expression profiles have primarily been described with bulk mixtures of cells. Here, we invoked inDrop, a droplet-based single-cell RNA-Seq method, to determine the transcriptomes of over 12,000 individual pancreatic cells from four human donors and two strains of mice. Cells could be divided into 15 clusters that matched previously characterized cell types: all endocrine cell types, including rare ghrelin-expressing epsilon-cells, exocrine cell types, vascular cells, Schwann cells, quiescent and activated pancreatic stellate cells, and four types of immune cells. We detected subpopulations of ductal cells with distinct expression profiles, and validated their existence with immuno-histochemistry stains. Moreover, among human beta-cells, we detected heterogeneity in the regulation of genes relating to functional maturation and levels of ER-stress. Finally, we deconvolve bulk gene expression samples using single-cell RNA-Seq to detect disease associated differential expression. Thus, our cross-species dataset provides a resource for the discovery of novel cell type-specific and cell type-restricted transcription factors, signaling receptors, and medically-relevant genes.
Overall design Single-cell RNA sequencing of pancreatic islets from 4 human donors and 2 mice strains.
Contributor(s) Veres A, Baron M
Citation(s) 27667365
Submission date Jul 07, 2016
Last update date May 15, 2019
Contact name Adrian Veres
Organization name Harvard University
Street address 7 Divinity Ave
City Cambridge
State/province Massachusetts
ZIP/Postal code 02138
Country USA
Platforms (2)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
Samples (6)
GSM2230757 human pancreatic islets, sample 1
GSM2230758 human pancreatic islets, sample 2
GSM2230759 human pancreatic islets, sample 3
BioProject PRJNA328774
SRA SRP078321

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Supplementary file Size Download File type/resource
GSE84133_RAW.tar 27.8 Mb (http)(custom) TAR (of CSV)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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