ExperimentSetReplicate

ExperimentSet4DNES53WJMNL
released
View JSON

Integrated spatial genomics in mouse brain cortex: 2460 loci across the whole genome at 1-Mb resolution and 1200 loci across 20 regions at 25-kb resolution (DNA seqFISH+), 76 RNA species including mRNA, introns and ncRNAs (RNA seqFISH), 8 chromatin marks and nuclear bodies (sequential IF)

   May 16th, 2022 at 12:31pm
Source Publication
Single-cell nuclear architecture across cell types in the mouse brain.
Takei Y, Zheng S, et al., Science (New York, N.Y.) 2021

Note on FOF-CT file format  

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
tissue
Sample 
cerebral cortex
Experiment Type(s) 
multiplexed FISH
Modification Type 
None
Treatment Type 
None
Assay Details 
Target: 78 RNAs (mouse), 8 genomic regions, 8 proteins, Chromosomes
Channel
Imaging Rounds
Path
 
ch01
1-80
1267 loci (mouse) targeted by oligo probe library (with Alexa Fluor 647-labeled imaging oligos)
ch02
1-80
1193 loci (mouse) targeted by oligo probe library (with Cy3B-labeled imaging oligos)
ch03
1-80
1200 loci from 20 regions at 25-kb resolution (mouse) targeted by oligo probe library (with Alexa Fluor 488-labeled imaging oligos)
ch01
-
39 RNAs (mouse) targeted by oligo probe library (with Alexa Fluor 647-labeled imaging oligos)
Show 9 More

18 Processed Files

Experiment
File
File Type
File Size
Notes
Experiment
4DNEXWI45RB4
Bio Rep 1, Tec Rep 1
multiplexed FISH on cerebral cortex
File
4DNFI4JGAIHP
FOF-CT - DNA-spot/trace core (csv)
72.73 MB
File
4DNFIW4S8M6J
FOF-CT - DNA-spot/trace core (csv)
55.72 MB
File
4DNFIPCGG31B
FOF-CT - RNA-spot (csv)
1.23 MB
-
File
4DNFIG1KETHF
FOF-CT - cell data (csv)
142.4 kB
-
File
4DNFIU6AYTV5
FOF-CT - spot quality (csv)
15.65 MB
File
4DNFIYKWORJ6
FOF-CT - spot quality (csv)
12.66 MB
Experiment
4DNEX3SA9WZZ
Bio Rep 2, Tec Rep 1
multiplexed FISH on cerebral cortex
File
4DNFIKS7TMJI
FOF-CT - DNA-spot/trace core (csv)
91.49 MB
File
4DNFI4LI6NNV
FOF-CT - DNA-spot/trace core (csv)
59.04 MB
File
4DNFI1O42IIW
FOF-CT - RNA-spot (csv)
1.16 MB
-
File
4DNFIFEOFBK4
FOF-CT - cell data (csv)
147.06 kB
-
File
4DNFI6KFNKF7
FOF-CT - spot quality (csv)
19.87 MB
File
4DNFIL9IEKFL
FOF-CT - spot quality (csv)
13.39 MB
Experiment
4DNEXELZLJ72
Bio Rep 3, Tec Rep 1
multiplexed FISH on cerebral cortex
File
4DNFIAMHROQM
FOF-CT - DNA-spot/trace core (csv)
155.47 MB
File
4DNFIDUJQDNO
FOF-CT - DNA-spot/trace core (csv)
89.14 MB
File
4DNFIQ1GGEYO
FOF-CT - RNA-spot (csv)
1.32 MB
-
File
4DNFI6C764XE
FOF-CT - cell data (csv)
207.66 kB
-
File
4DNFIRT7B9YQ
FOF-CT - spot quality (csv)
34.43 MB
File
4DNFI44YUPSB
FOF-CT - spot quality (csv)
20.28 MB