ExperimentSetReplicate

ExperimentSet4DNESW8SIXN7
released
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in situ Hi-C on SOX17-eGFP idCAS9-KRAB 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 idCAS9-KRAB 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
4DNESW8SIXN7
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIVX7FZSW
244.84m
51.242%
26.94%
21.818%
Experiment
4DNEX143ONJ6
Bio Rep 1, Tec Rep 1
in situ Hi-C on SOX17-eGFP idCAS9-KRAB HUES8 differentiated to definitive endoderm with Arima - A1, A2
File
Contact List-replicate (pairs)
4DNFIL7OOS69
244.84m
51.242%
26.94%
21.818%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESW8SIXN7
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI8RY8EI6
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX143ONJ6
Bio Rep 1, Tec Rep 1
in situ Hi-C on SOX17-eGFP idCAS9-KRAB HUES8 differentiated to definitive endoderm with Arima - A1, A2
File
Alignments (bam)
4DNFIH6D46DE
340.96m
6.808%
10.075%
3.907%
7.4%
0.172%