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| Status |
Public on Jul 01, 2016 |
| Title |
Gene expression profiling of Eed knockout and Ezh2 knockout small intestinal crypts [RNA-seq] |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Polycomb-mediated gene repression plays an important role in adult stem cell maintenance. We knocked out (using the inducible AhCre-LoxP system) Polycomb genes Eed and Ezh2 in the intestine for 6 weeks, after which crypts - the small intestinal stem cell zone - were harvested and RNA sequenced. We found Wnt, Notch and cell cycle pathways to be affected in Eed knockout (KO) but not Ezh2 KO crypts. Direct targets of Eed were determined by comparing this data with ChIP-sequencing.
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| Overall design |
Small intestinal crypt mRNA profiles of 6 weeks-induced 12 weeks old Eed KO, Ezh2 KO and WT mice (all triplicates) as well as 10 days-induced Eed KO and WT organoids (duplicates) were generated by RNA sequencing over two runs and using IlluminaHiseq2000 and Hiseq2500.
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| Contributor(s) |
Koppens MA, Bounova G, Gargiulo G, Tanger E, Janssen H, Cornelissen-Steijger P, Blom M, Song J, Wessels LF, van Lohuizen M |
| Citation(s) |
27342214 |
| |
| Submission date |
May 18, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Martijn Koppens |
| E-mail(s) |
majkoppens@gmail.com
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| Organization name |
NKI-AVL
|
| Department |
Molecular Genetics
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| Street address |
Plesmanlaan 121
|
| City |
Amsterdam |
| ZIP/Postal code |
1066CX |
| Country |
Netherlands |
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| Platforms (2) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
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| Samples (13)
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| This SubSeries is part of SuperSeries: |
| GSE81578 |
Gene expression profiling of Eed knockout and Ezh2 knockout small intestinal crypts |
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| Relations |
| BioProject |
PRJNA322037 |
| SRA |
SRP075353 |
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