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Series GSE76408 Query DataSets for GSE76408
Status Public on Jun 23, 2016
Title Single-cell RNA-seq reveals distinct maturation stages of the Paneth cell lineage
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Paneth cells (PCs) are long-lived secretory cells that reside at the bottoms of small intestinal crypts. Besides serving as niche cells for the neighboring Lgr5-positive stem cells, PCs secrete granules containing a broad spectrum of antimicrobial proteins, including lysozymes and defensins1. Here, we have used single-cell RNA sequencing to explore PC differentiation. We found a maturation gradient from early secretory progenitors to mature PCs, capturing the full maturation path of PCs. Moreover, differential expression of a subset of defensin genes in lysozyme-high PCs, e.g. Defa20, reveals at least two distinct stages of maturation.
Overall design We traced Lgr5+ stem cells from Lgr5-CreERT2 C57Bl6/J mice bred to a Rosa26LSL-YFP reporter mice and sorted YFP+ cells 5 days, 3 weeks and 8 weeks after tamoxifen injection.
Contributor(s) Wiebrands K, Grün D, Lyubimova A, van Oudenaarden A
Citation(s) 27345837
Submission date Dec 29, 2015
Last update date May 15, 2019
Contact name Kay Wiebrands
Organization name Hubrecht Institute
Street address Uppsalalaan 8
City Utrecht
ZIP/Postal code 3584CT
Country Netherlands
Platforms (2)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (13)
GSM1987570 Extracted RNA 5-day traced Lgr5+ cells replicate 1
GSM1987571 Extracted RNA 5-day traced Lgr5+ cells replicate 2
GSM1987573 Extracted RNA 5-day traced Lgr5+ cells replicate 3
BioProject PRJNA307195
SRA SRP067892

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

Supplementary file Size Download File type/resource
GSE76408_RAW.tar 5.4 Mb (http)(custom) TAR (of CSV)
GSE76408_cel-seq_barcodes.txt.gz 427 b (ftp)(http) TXT
GSE76408_expdata.txt.gz 2.5 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data provided as supplementary file

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