ExperimentSetReplicate

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ExperimentSet4DNES7J5VP92
released
View JSON

Multiplexed FISH of chromosome 22 in A549-Cas9 cancer cells from 17 coverslips, where each coverslip is imaging of the pooled CRISPR screen cells where cells are transduced with sgRNA targeting and knockdown specific genes or sgNTC, non-targeting control. The Crispr screen includes a total of 137 gene targeted by 404 sgRNAs and 8 sgNTC used as controls. The knocked out gene and NTC corresponding to a trace can be found in the associated fof-ct processed files.

   March 28th, 2025 at 1:38pm
Source Publication
Perturb-tracing enables high-content screening of multiscale 3D genome regulators.
Cheng Y, Hu M, et al., bioRxiv : the preprint server for biology 2023

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
immortalized cells
Sample 
A549
Experiment Type(s) 
multiplexed FISH
Modification Type 
Viral Transduction
Treatment Type 
None
Assay Details 
Target: 27 TADs in Chr22, Chromosomes, Geminin
Channel
Imaging Rounds
Path
 
ch00
0
Chromosomes targeted by DAPI
ch01
1-14
Yellow-green fiducial beads for drift correction on chromosome 22
ch02
0
G1 phase detection
ch03
1-14
27 TADs imaged on Chr22 imaged using ATTO 565 imaging probes
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2 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEXB98WM6D
Bio Rep 1, Tec Rep 1
multiplexed FISH on A549
File
4DNFI7XUQN2H
FOF-CT - trace data (csv)
856.2 kB
File
4DNFIJTVPCAI
FOF-CT - DNA-spot/trace core (csv)
119.08 MB