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

multiplexed FISH4DNEXU2GDGY4
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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 and A485 to inhibit p300 activity for 12 hrs followed with 6hr recovery, Biological Replicate 1, Technical Replicate 1

   February 3rd, 2025 at 3:47pm
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 
4DNBSA8HSNMA
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) and A485 treatment (10 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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