ExperimentMic multiplexed FISH on F123-CASTx129 with Sox2 tags and RMCE site between Sox2 and its SE

multiplexed FISH4DNEX7B4TNTB
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Multiplexed FISH in Sox2 tagged mouse embryonic stem cell line (F123-CASTx129) and a 7.5kb insertion containing 4 CTCF binding sites introduced between Sox2 and its Super Enhancers, treated with dTAG to degrade CTCF, Biological Replicate 1, Technical Replicate 1

   February 3rd, 2025 at 3:46pm
Source Publication
Context-Dependent and Gene-Specific Role of Chromatin Architecture Mediated by Histone Modifiers and Loop-extrusion Machinery.
Tastemel M, Jussila A, et al., bioRxiv : the preprint server for biology 2025

Properties  

Experiment Type 
multiplexed FISH
Follows SOP 
No
Biosample 
4DNBS5QOVJLN
Biosample Biosource 
F123-CASTx129 with Sox2 tags and RMCE site between Sox2 and its SE - 4DNSR9TIV5EV
Biosample Modifications 
Crispr insertion for Ctcf mouse gene
Biosample Treatments 
dTAG-13 treatment (2 μM, 12h)
Microscopy Technique 
Widefield
Microscope Quality Control 
None
Microscope Configuration 
no view permissions
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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