ExperimentSetReplicate

ExperimentSet4DNESTNG39BO
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Chromatin tracing (ORCA) of a 3-Mb region at the chr3 locus in mESC CTCF-AID untreated

   March 17th, 2023 at 9:29pm
Source Publication
Loop stacking organizes genome folding from TADs to chromosomes.
Hafner A, Park M, et al., Molecular cell 2023

Microscope configuration  

The experiments associated with this study are derived from either 33ea326f-a557-4457-becf-55bc860c4bdf or 4fc82c6a-a9cd-43e1-aee8-36db3174b409 microscopes

Note on FOF-CT file format  

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
stem cells
Sample 
ES-E14TG2a with CTCF-AID
Experiment Type(s) 
multiplexed FISH
Modification Type 
None
Treatment Type 
None
Assay Details 
  1. Target: 3-Mb chr6 (mouse)
  2. Target: 3-Mb chr6 (mouse), Geminin (mouse), Chromosomes
Channel
Path
 
ch02
3-Mb chr6 (mouse) targeted by oligo probe library, readout oligo library (with Cy5-labeled imaging oligos)
ch01
3-Mb chr6 (mouse) targeted by oligo probe library (with Cy3-labeled fiducial oligo probes)

10 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEXZU2N5SB
Bio Rep 1, Tec Rep 1
multiplexed FISH on ES-E14TG2a with CTCF-AID
File
4DNFI2OG3IPB
FOF-CT - DNA-spot/trace core (csv)
8.75 MB
File
4DNFILX3U94J
FOF-CT - spot quality (csv)
2.52 MB
File
4DNFITJOEPG1
FOF-CT - trace data (csv)
25.17 kB
Experiment
4DNEX84R1VFO
Bio Rep 1, Tec Rep 2
multiplexed FISH on ES-E14TG2a with CTCF-AID
File
4DNFIU5X9MXT
FOF-CT - DNA-spot/trace core (csv)
8.49 MB
File
4DNFIJG6KVNE
FOF-CT - spot quality (csv)
2.44 MB
File
4DNFI6MLLS3Z
FOF-CT - trace data (csv)
26.22 kB
Experiment
4DNEXRMBZE8V
Bio Rep 2, Tec Rep 1
multiplexed FISH on ES-E14TG2a with CTCF-AID
File
4DNFIIQ8YIG4
FOF-CT - DNA-spot/trace core (csv)
16.17 MB
File
4DNFIO5JJB4K
FOF-CT - spot quality (csv)
4.49 MB
File
4DNFIKJAPGQQ
FOF-CT - trace data (csv)
44.33 kB
File
4DNFIP9SXUQC
FOF-CT - cell data (csv)
57.21 kB