ExperimentSetReplicate

ExperimentSet4DNESSJUM54F
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Chromatin tracing (MINA) of a closed chromatin region of 840-kb on chrX (chrX:8360000-9200000, GRCh38) in human female IMR-90 cells. The data presented here is derived from 1 biological replicate.

   August 3rd, 2022 at 10:59am
Source Publication
TAD-like single-cell domain structures exist on both active and inactive X chromosomes and persist under epigenetic perturbations.
Cheng Y, Liu M, et al., Genome biology 2021

Microscope configuration - Cheng Y et al 2021  

The experiments associated with this study are derived from either d8f51a9c-1e1a-4a6c-9432-ddf7de64e836 or f0172a96-2bf5-4e6a-938d-f205c6e728c9 microscopes.

Note on FOF-CT file format  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
primary cells
Sample 
IMR-90
Experiment Type(s) 
multiplexed FISH
Modification Type 
None
Treatment Type 
None
Assay Details 
Target: 28 consecutive 30-kb loci on chrX (closed chromatin), XIST transcript
Channel
Imaging Rounds
Path
 
ch03
-
28 consecutive 30-kb loci on chrX (closed chromatin) targeted by Cy5-labeled oligo probe library
ch02
-
XIST transcript targeted by ATTO 565-labeled oligo probes
ch03
1-14
28 consecutive 30-kb loci on chrX (closed chromatin) targeted by oligo probe library (with Alexa Fluor 647-labeled imaging oligos)
ch02
1-14
28 consecutive 30-kb loci on chrX (closed chromatin) targeted by oligo probe library (with ATTO 565-labeled imaging oligos)
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2 Processed Files

Experiment
File
File Type
File Size
From Multiple Experiments
4DNESSJUM54F
Multiple Experiments
File
4DNFIXEMKA6S
FOF-CT - DNA-spot/trace core (csv)
563.61 kB
File
4DNFI1XVVHC2
FOF-CT - trace data (csv)
2.84 kB
Experiment
File
File Type
File Size
Experiment
4DNEXGZXOM34
Bio Rep 1, Tec Rep 1
multiplexed FISH on IMR-90
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-
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