ExperimentSetReplicate

ExperimentSet4DNESW9GVC97
released
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in situ Hi-C on SOX17-eGFP iCAS9 HUES8 human embryonic stem cells differentiated to definitive endoderm (DE)

   May 31st, 2023 at 3:11pm
Source Publication
Dynamic network-guided CRISPRi screen identifies CTCF-loop-constrained nonlinear enhancer gene regulatory activity during cell state transitions.
Luo R, Yan J, et al., Nature genetics 2023

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
in vitro differentiated cells
Sample 
SOX17-eGFP iCAS9 HUES8 differentiated to definitive endoderm
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: Arima - A1, A2

8 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESW9GVC97
Multiple Experiments
File
Contact List-combined (pairs)
4DNFITTXPEB2
221.82m
52.431%
30.441%
17.129%
Experiment
4DNEXJCUBTM2
Bio Rep 1, Tec Rep 1
in situ Hi-C on SOX17-eGFP iCAS9 HUES8 differentiated to definitive endoderm with Arima - A1, A2
File
Contact List-replicate (pairs)
4DNFIL2OJUXF
221.82m
52.431%
30.441%
17.129%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESW9GVC97
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIL3I44T1
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXJCUBTM2
Bio Rep 1, Tec Rep 1
in situ Hi-C on SOX17-eGFP iCAS9 HUES8 differentiated to definitive endoderm with Arima - A1, A2
File
Alignments (bam)
4DNFIK734P7Z
321.59m
7.682%
10.172%
4.587%
8.583%
0.163%