ExperimentSetReplicate

ExperimentSet4DNESGUTNX66
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Multiplexed FISH in WT-Rnf2 rescue cell line generated by knockdown of Rnf2 via small hairpin RNA (shRnf2) followed by insertion of vector expressing WT Rnf2 in KP primary adenoma cancer cells from mouse

   May 27th, 2025 at 5:42pm
Source Publication
Tracing the evolution of single-cell cancer 3D genomes: an atlas for cancer gene discovery.
Liu M, Jin S, et al., bioRxiv : the preprint server for biology 2024

Note on FOF-CT file format  

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
primary cells
Sample 
type II pneumocyte
Experiment Type(s) 
multiplexed FISH
Modification Type 
Stable Transfection
Treatment Type 
None
Assay Details 
Target: Total 473 TADs spanning between Chr1-Chr19 (mouse), Chromosomes
Channel
Imaging Rounds
Path
 
ch00
0
Light yellow fiducial beads for drift correction
ch01
1-50
~60kb feature-containing or central region of each of 473 TADs spanning from Chr1 to Ch19 targeted by Alexa 647-labelled imaging oligos
ch02
1-50
~60kb feature-containing or central region of each of 473 TADs spanning from Chr1 to Ch19 targeted by ATTO 565-labelled imaging oligos
ch03
0
Chromosomes targeted by DAPI

2 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEX6FV7BXG
Bio Rep 1, Tec Rep 1
multiplexed FISH on type II pneumocyte
File
4DNFITZBMT6Q
FOF-CT - DNA-spot/trace core (csv)
60.72 MB
Experiment
4DNEXECSQX9Y
Bio Rep 2, Tec Rep 1
multiplexed FISH on type II pneumocyte
File
4DNFIRXOU8YC
FOF-CT - DNA-spot/trace core (csv)
47.32 MB