ExperimentSetReplicate

ExperimentSet4DNESPE924IP
released
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Genome-wide chromatin imaging by DNA-MERFISH of 2000 loci in mouse primary motor cortex of Mecp2 heteozygous knock-out mice, together with RNA-MERFISH of 240 gene transcripts

   November 15th, 2023 at 8:41pm
Source Publication
Cell-type-specific 3D-genome organization and transcription regulation in the brain.
Liu S, Zheng P, et al., bioRxiv : the preprint server for biology 2023

Note on FOF-CT file format  

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
tissue
Sample 
primary motor cortex
Experiment Type(s) 
multiplexed FISH
Modification Type 
None
Treatment Type 
None
Assay Details 
Target: 2000 loci (mouse), Chromosomes, MOp RNA-MERFISH (mouse), Mecp2 mouse protein
Channel
Imaging Rounds
Path
 
ch02
13-97
2000 loci (mouse) targeted by oligo probe library, readout oligo library (with Cy3-labeled imaging oligos)
ch03
13-97
2000 loci (mouse) targeted by oligo probe library, readout oligo library (with Alexa Fluor 647-labeled imaging oligos)
ch04
13-97
2000 loci (mouse) targeted by oligo probe library, readout oligo library (with Alexa Fluor 750-labeled imaging oligos)
ch01
0
540/560nm fiducial beads
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12 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEXYXXV9AQ
Bio Rep 1, Tec Rep 1
multiplexed FISH on primary motor cortex
File
4DNFIY7ULW4E
FOF-CT - DNA-spot/trace core (csv)
1.19 GB
File
4DNFIKTT53NE
FOF-CT - spot demultiplexing (csv)
5.66 GB
File
4DNFIGGW8X11
FOF-CT - cell data (csv)
12.67 MB
Experiment
4DNEXDSE1987
Bio Rep 2, Tec Rep 1
multiplexed FISH on primary motor cortex
File
4DNFIDJJZFYF
FOF-CT - DNA-spot/trace core (csv)
1.99 GB
File
4DNFILMHQEBY
FOF-CT - spot demultiplexing (csv)
9.15 GB
File
4DNFIQ8VF1OM
FOF-CT - cell data (csv)
17.66 MB
Experiment
4DNEXRBK6HWZ
Bio Rep 3, Tec Rep 1
multiplexed FISH on primary motor cortex
File
4DNFIM453D3J
FOF-CT - DNA-spot/trace core (csv)
1.31 GB
File
4DNFIZ7LOIW2
FOF-CT - spot demultiplexing (csv)
6.47 GB
File
4DNFIZQML8A6
FOF-CT - cell data (csv)
19.46 MB
Experiment
4DNEXH6CINOZ
Bio Rep 4, Tec Rep 1
multiplexed FISH on primary motor cortex
File
4DNFIN99DPHD
FOF-CT - DNA-spot/trace core (csv)
1.63 GB
File
4DNFIWHZUB1X
FOF-CT - spot demultiplexing (csv)
6.42 GB
File
4DNFIKRWUGOQ
FOF-CT - cell data (csv)
17.05 MB