ExperimentSetReplicate

ExperimentSet4DNESMTNNB3N
released
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Genome-wide chromatin imaging by DNA-MERFISH of 2000 loci in mouse primary motor cortex, 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)
Channel
Imaging Rounds
Path
 
ch02
12-87
2000 loci (mouse) targeted by oligo probe library, readout oligo library (with Cy3-labeled imaging oligos)
ch03
12-87
2000 loci (mouse) targeted by oligo probe library, readout oligo library (with Alexa Fluor 647-labeled imaging oligos)
ch04
12-87
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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16 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEX4L6B8F2
Bio Rep 1, Tec Rep 1
multiplexed FISH on primary motor cortex
File
4DNFIMCISOJB
FOF-CT - DNA-spot/trace core (csv)
1.35 GB
File
4DNFIRPW731Q
FOF-CT - spot demultiplexing (csv)
7.47 GB
File
4DNFIB4FD8RG
FOF-CT - RNA-spot (csv)
1.71 GB
File
4DNFIA7FUW8Y
FOF-CT - cell data (csv)
19.19 MB
Experiment
4DNEXZTUN9TK
Bio Rep 2, Tec Rep 1
multiplexed FISH on primary motor cortex
File
4DNFIM9T6MT5
FOF-CT - DNA-spot/trace core (csv)
1.39 GB
File
4DNFIU2A38G8
FOF-CT - spot demultiplexing (csv)
6.75 GB
File
4DNFI11UL1UQ
FOF-CT - RNA-spot (csv)
1.41 GB
File
4DNFI3R71II5
FOF-CT - cell data (csv)
14.43 MB
Experiment
4DNEX6ZNHHBS
Bio Rep 3, Tec Rep 1
multiplexed FISH on primary motor cortex
File
4DNFIC62S1V9
FOF-CT - DNA-spot/trace core (csv)
1.42 GB
File
4DNFI2ZARXGH
FOF-CT - spot demultiplexing (csv)
8.16 GB
File
4DNFIA6VHY5L
FOF-CT - RNA-spot (csv)
1.15 GB
File
4DNFINMD8PA4
FOF-CT - cell data (csv)
18.01 MB
Experiment
4DNEXBUVZYLI
Bio Rep 3, Tec Rep 2
multiplexed FISH on primary motor cortex
File
4DNFI78AIUP8
FOF-CT - DNA-spot/trace core (csv)
1.57 GB
File
4DNFIZQHQASN
FOF-CT - spot demultiplexing (csv)
7.29 GB
File
4DNFIJGN6FJ5
FOF-CT - RNA-spot (csv)
823.26 MB
File
4DNFICX8IVEK
FOF-CT - cell data (csv)
15.8 MB