ExperimentMic multiplexed FISH on H9 differentiated to cranial neural crest

multiplexed FISH4DNEXLQ5H442
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Chromatin tracing of SOX9 locus in H9 hESCs with CTCF deletion at E1.35 (clone 1), differentiated to cranial neural crest cells. 52 sequential steps (steps #7-58 of the oligopaint library targeting the 4-Mb SOX9 locus) spaced 50 kb (each spot is 5 kb), 2.6 Mb in total. Imaged together with the wild type and delta-CTCF (promoter) conditions. Replicate 1 of 2.

   January 18th, 2023 at 9:25pm
Source Publication
Structural elements promote architectural stripe formation and facilitate ultra-long-range gene regulation at a human disease locus.
Chen LF, Long HK, et al., Molecular cell 2023

Properties  

Experiment Type 
multiplexed FISH
Follows SOP 
No
Biosample 
4DNBSYD7Q66N
Biosample Biosource 
H9 - 4DNSRBJKA2H5
Biosample Modifications 
Crispr deletion for CTCF binding site at E1.35
Biosample Treatments 
None
Microscopy Technique 
Highly Inclined Laminated Optical Sheet
Microscope Quality Control 
None
Microscope Configuration 
Stanford-Boettiger_lab_ORCA_Nikon_Eclipse_Ti-U_Scope1
Channel
Imaging Rounds
Path
 
ch00
7-58
80 spaced regions at SOX9 locus targeted by oligo probe library, readout oligo library (with Cy5-labeled imaging oligos)
ch01
-
80 spaced regions at SOX9 locus targeted by oligo probe library (with Cy3-labeled fiducial oligo probes)

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