ExperimentSetReplicate

ExperimentSet4DNESQN4JCAS
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Super-resolution imaging of 8 Mb of chromosome 19 by OligoSTORM in human fibroblasts. Each file corresponds to a single cell (n=18 cells). Cells imaged during the same imaging session are grouped within one biological replicate.

   July 15th, 2021 at 4:13pm
Source Publication
Walking along chromosomes with super-resolution imaging, contact maps, and integrative modeling.
Nir G, Farabella I, et al., PLoS genetics 2018

Note on file format for particle localization from Vutara  

Particle localizations for the OligoSTORM dataset from Nir et al. 2018 are in csv format, as produced by the Vutara SRX software from Bruker. A detailed description of all the columns is provided in this extract from the software manual.

Note on FOF-CT file format  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
primary cells
Sample 
GM23248
Experiment Type(s) 
multiplexed FISH
Modification Type 
None
Treatment Type 
None
Assay Details 
Target: 22 genomic regions
Channel
Imaging Rounds
Path
 
ch00
0
Chromosome segment CS1 on chr19 targeted by oligopaint probe library, bridge oligos (with Alexa Fluor 647-labeled imaging oligos)
ch00
1
Chromosome segment CS2 on chr19 targeted by oligopaint probe library, bridge oligos (with Alexa Fluor 647-labeled imaging oligos)
ch00
2
Chromosome segment CS3 on chr19 targeted by oligopaint probe library, bridge oligos (with Alexa Fluor 647-labeled imaging oligos)
ch00
3
Chromosome segment CS4 on chr19 targeted by oligopaint probe library, bridge oligos (with Alexa Fluor 647-labeled imaging oligos)
Show 19 More

18 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEXP1ZWBGC
Bio Rep 1, Tec Rep 1
multiplexed FISH on GM23248
File
4DNFICP54S3V
localizations (csv)
25.9 MB
File
4DNFI13WQHP4
localizations (csv)
12.36 MB
File
4DNFI7PQKMZ3
localizations (csv)
16.26 MB
Experiment
4DNEXAFPKJFF
Bio Rep 2, Tec Rep 1
multiplexed FISH on GM23248
File
4DNFIVEWFPU8
localizations (csv)
31.25 MB
Experiment
4DNEXPSOC1ZK
Bio Rep 3, Tec Rep 1
multiplexed FISH on GM23248
File
4DNFIA7O33PJ
localizations (csv)
5.07 MB
File
4DNFI9MQTV4Y
localizations (csv)
7.88 MB
Experiment
4DNEXPRBBX2L
Bio Rep 4, Tec Rep 1
multiplexed FISH on GM23248
File
4DNFI46JR287
localizations (csv)
14.26 MB
File
4DNFI2RHF3VP
localizations (csv)
11.63 MB
File
4DNFISS36FOC
localizations (csv)
14.41 MB
Experiment
4DNEX9EF563X
Bio Rep 5, Tec Rep 1
multiplexed FISH on GM23248
File
4DNFIB5LA97M
localizations (csv)
5.12 MB
File
4DNFIITJWHEZ
localizations (csv)
3.66 MB
File
4DNFIUMB3MBM
localizations (csv)
5 MB
File
4DNFIA2HE5RE
localizations (csv)
3.29 MB
Experiment
4DNEX3K9EZJ4
Bio Rep 6, Tec Rep 1
multiplexed FISH on GM23248
File
4DNFIUPJ3K4C
localizations (csv)
4.27 MB
File
4DNFIO41M3O8
localizations (csv)
4.22 MB
File
4DNFI1RY2DY8
localizations (csv)
3.08 MB
File
4DNFIA5YYBRO
localizations (csv)
4.84 MB
File
4DNFID5LKGX3
localizations (csv)
4.82 MB