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| Status |
Public on Aug 16, 2020 |
| Title |
STARR-seq enhancer activity in mouse embryonic stem cells cultured in 2i+LIF or serum+LIF [STARR-seq] |
| Organism |
Mus musculus |
| Experiment type |
Other
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| Summary |
Enhancers are distal regulators of gene expression that shape cell identity and regulate cell fate transitions. Mouse embryonic stem cells (mESCs) are a typical example of cells whose pluripotent identity is maintained by a complex enhancer landscape, that is drastically altered upon differentiation. Genome-wide chromatin accessibility and histone modification assays are commonly used as a proxy for enhancer location, strength and dynamics. Here, we applied STARR-seq, a genome-wide plasmid-based assay, to measure the enhancer potential of genomic loci in a plasmid context in “ground-state” (2i+LIF; 2iL-ESCs) and “metastable” (serum+LIF; SL-ESCs) embryonic stem cells.
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| Overall design |
8 samples were analyzed. 2 biological replicates were performed in either 2i+LIF or serum+LIF condition cultured mESCs. Each STARR-seq libarary has it's own input library as control.
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| Contributor(s) |
Peng T, Zhai Y, ter Huurne M, Atlasi Y, Marks H, Stunnenberg HG, Megchelenbrink W |
| Citation(s) |
32912294 |
| |
| Submission date |
Jan 13, 2020 |
| Last update date |
Sep 21, 2020 |
| Contact name |
Wout Megchelenbrink |
| Organization name |
Princess Maxima Centre for Pediatric Oncology
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| Lab |
Stunnenberg
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| Street address |
Heidelberglaan 25
|
| City |
Utrecht |
| ZIP/Postal code |
3584 CS |
| Country |
Netherlands |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (8)
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| This SubSeries is part of SuperSeries: |
| GSE143546 |
STARR-seq identifies chromatin masked enhancers in pluripotent mouse embryonic stem cells |
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| Relations |
| BioProject |
PRJNA600931 |
| SRA |
SRP241734 |
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