ExperimentSetReplicate

ExperimentSet4DNESEQ43U3E
released
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Optical Reconstruction of Chromatin Architecture (ORCA) of a 700-kb region including the bithorax complex (BX-C) and flanking domains at 10-kb steps in wild type fly embryos. Additionally, 29 mRNA and nascent RNA species are detected by sequential RNA FISH.

   May 20th, 2022 at 8:51am
Source Publication
Visualizing DNA folding and RNA in embryos at single-cell resolution.
Mateo LJ, Murphy SE, et al., Nature 2019

Microscope configuration - Mateo et al. 2019  

The experiments associated with this study are derived from either 84d52890-7e46-4cf8-810c-071ed0673ce8 or a2b6ca4e-7de9-484f-b8c3-c868b68f929e microscopes.

Note on FOF-CT file format  

Experiment Set Properties  

Set Type 
Replicate
Organism 
D. melanogaster
Sample Type 
tissue
Sample 
embryo
Experiment Type(s) 
multiplexed FISH
Modification Type 
None
Treatment Type 
None
Assay Details 
Target: 29 mRNAs and nascent RNAs (fruit fly), 70 consecutive 10-kb loci in the BX-C region (fruit fly)
Channel
Path
 
ch00
70 consecutive 10-kb loci in the BX-C region (fruit fly) targeted by oligo probe library (with Cy3-labeled fiducial oligo probes)
ch01
70 consecutive 10-kb loci in the BX-C region (fruit fly) targeted by oligo probe library, readout oligo library (with Cy5-labeled imaging oligos)
ch01
29 mRNAs and nascent RNAs (fruit fly) targeted by oligo probe library, readout oligo library (with Cy5-labeled imaging oligos)

4 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEXCRZ158P
Bio Rep 1, Tec Rep 1
multiplexed FISH on embryo
File
4DNFIUEO3B2O
FOF-CT - DNA-spot/trace core (csv)
15.72 MB
File
4DNFIJZE7R48
FOF-CT - spot quality (csv)
2.36 MB
Experiment
4DNEXLSGBFMV
Bio Rep 2, Tec Rep 1
multiplexed FISH on embryo
File
4DNFIB2CXM7K
FOF-CT - DNA-spot/trace core (csv)
68.93 MB
File
4DNFIT6BQ4CR
FOF-CT - spot quality (csv)
10.46 MB