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Series GSE62784 Query DataSets for GSE62784
Status Public on Dec 05, 2014
Title Cell-autonomous transformation of Lgr5-positive intestinal stem cells into gastric stem cells upon loss of transcription factor Cdx2
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Stomach and intestinal adult epithelia harbor stem cells that are responsible for their continuous regeneration. Stomach and intestinal stem cells differ in their differentiation program and in the gene repertoire that they express. We show that single adult Lgr5-positive stem cells, isolated from 3D cultured small intestinal organoids, require Cdx2 to maintain their intestinal identity and are converted cell-autonomously into stomach-pyloric stem cells in the absence of this transcription factor.
 
Overall design In order to obtain Cdx2null intestinal stem cells carrying the Lgr5-EGFP marker, 5-6 days old small intestinal organoids generated from Cdx2-/fl/Lgr5-EGFP-Ires-CreERT2 mice were incubated with 1 ┬ÁM of 4-hydroxytamoxifen in intestinal culture medium for 16h to activate the Cre recombinase. Controls were 4-hydroxytamoxifen-untreated small intestinal (Control SI) and stomach (Control Sto) organoids issued from mice with the same genotype. The organoids were dissociated and sorted for EGFPhi. Cdx2null, Control SI and Control Sto clonal organoids were generated and expanded from Lgr5-EGFPhi single cells in stomach specific culture medium (ENRWfg) and RNA was isolated for RNA-Seq analysis. Cdx2+ Stomach (Sto) organoids were generated by infection of the wild type stomach organoids with lentiviral stock expressing Cdx2. They were cultured in stomach medium (ENRWfg) and RNA was isolated for RNA-Seq analysis
 
Contributor(s) Simmini S, Bialecka M, Huch M, Kester L, van de Wetering M, Sato T, Beck F, van Oudenaarden A, Clevers H, Deschamps J
Citation(s) 25500896
Submission date Oct 28, 2014
Last update date May 15, 2019
Contact name Lennart Kester
E-mail(s) l.kester@hubrecht.eu
Organization name Hubrecht Institute
Street address Uppsalalaan 8
City Utrecht
ZIP/Postal code 3584CT
Country Netherlands
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (16)
GSM1533368 Extracted RNA from Cdx2 overexpressing stomach organoids Cdx2+_Sto_2
GSM1533369 Extracted RNA from Control Stomach organoids Control_Sto_2
GSM1533370 Extracted RNA from Cdx2 overexpressing stomach organoids Cdx2+_Sto_3
Relations
BioProject PRJNA265111
SRA SRP049350

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE62784_BC.txt.gz 164 b (ftp)(http) TXT
GSE62784_data_counts_ORG.txt.gz 430.2 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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