ExperimentSetReplicate

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ExperimentSet4DNESI7RG1SM
released
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Multiplexed FISH in Sox2 tagged mouse embryonic stem cell line (F123-CASTx129) with a 7.5kb insertion containing 4 CTCF binding sites introduced between Sox2 and its Super Enhancer, treated with dTAG to degrade CTCF

   February 3rd, 2025 at 3:47pm

Data Usage Guidelines  

Data Use Guidelines: This is a data set generated by the 4DN Network and made freely available to the scientific community. If you are intending to use these data for a publication, we ask that you please contact the data generating lab to discuss possible coordinated publication. In your manuscript, please cite the 4DN White Paper (doi:10.1038/nature23884) and the 4DN Data Portal paper (doi:10.1038/s41467-022-29697-4), and please acknowledge the 4DN lab which generated the data. Please direct any questions to the Data Coordination and Integration Center.

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
stem cells
Sample 
F123-CASTx129 with Sox2 tags and RMCE site between Sox2 and its SE
Experiment Type(s) 
multiplexed FISH
Modification Type 
Crispr
Treatment Type 
Chemical
Assay Details 
Target: 101 40-bp regions on Chr11 (mouse), 4470 40-bp on the 205kb stretch from Sox2 gene to SE and surrounding regions (mouse), Chromosomes
Channel
Imaging Rounds
Path
 
ch00
1
DAPI staining
ch03
1
101 40-bp regions on Chr11 (mouse) placed as a 7.5kb insertion between Sox2 promoter and SE, targeted by Alexa Fluor 647 (Imaging probes)
ch01
2-15
4470 40-bp on the 205kb stretch from Sox2 gene to SE and surrounding regions (mouse) targeted by Fluospheres 505 (Fiducial probes)
ch02
2-15
4470 40-bp on the 205kb stretch from Sox2 gene to SE and surrounding regions (mouse) targeted by Alexa Fluor 750 (Imaging probes)
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1 Processed File

Experiment
File
File Type
File Size
Experiment
4DNEX7B4TNTB
Bio Rep 1, Tec Rep 1
multiplexed FISH on F123-CASTx129 with Sox2 tags and RMCE site between Sox2 and its SE
File
4DNFIASUW718
FOF-CT - DNA-spot/trace core (csv)
4.77 MB