ExperimentSetReplicate

ExperimentSet4DNESID7GI8N
released
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Chromatin tracing of SOX9 locus in H9 hESCs with CTCF deletion at SOX9 promoter, 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.

   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

Note on FOF-CT file format  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
in vitro differentiated cells
Sample 
H9 differentiated to cranial neural crest
Experiment Type(s) 
multiplexed FISH
Modification Type 
Crispr
Treatment Type 
None
Assay Details 
Target: 80 spaced regions at SOX9 locus
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)

4 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEXDC587AV
Bio Rep 1, Tec Rep 1
multiplexed FISH on H9 differentiated to cranial neural crest
File
4DNFI5TSGDPR
FOF-CT - DNA-spot/trace core (csv)
6.18 MB
File
4DNFIZTKIAUQ
FOF-CT - spot quality (csv)
1.57 MB
Experiment
4DNEXSV9TQCK
Bio Rep 2, Tec Rep 1
multiplexed FISH on H9 differentiated to cranial neural crest
File
4DNFICMQ1GXA
FOF-CT - DNA-spot/trace core (csv)
3.04 MB
File
4DNFILJSI2QE
FOF-CT - spot quality (csv)
796.68 kB