|
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
|
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.
|
|
|
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.
|
|
|
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
|
Lab |
Stunnenberg
|
Street address |
Heidelberglaan 25
|
City |
Utrecht |
ZIP/Postal code |
3584 CS |
Country |
Netherlands |
|
|
Platforms (1) |
GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
|
Samples (8)
|
|
This SubSeries is part of SuperSeries: |
GSE143546 |
STARR-seq identifies chromatin masked enhancers in pluripotent mouse embryonic stem cells |
|
Relations |
BioProject |
PRJNA600931 |
SRA |
SRP241734 |