ExperimentSetReplicate

ExperimentSet4DNESFL8KDMT
released
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in situ Hi-C on undifferentiated PDX1-GFP idCAS9-KRAB H1 human embryonic stem cells

   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 
stem cells
Sample 
PDX1-eGFP dCAS9-KRAB H1
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
4DNESFL8KDMT
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI7G1WYSW
106.58m
57.294%
28.716%
13.99%
Experiment
4DNEXXRMWCN7
Bio Rep 1, Tec Rep 1
in situ Hi-C on PDX1-eGFP dCAS9-KRAB H1 with Arima - A1, A2
File
Contact List-replicate (pairs)
4DNFIKJKPIKG
106.58m
57.294%
28.716%
13.99%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESFL8KDMT
Multiple Experiments
File
Contact Matrix (mcool)
4DNFISVEZ6EJ
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXXRMWCN7
Bio Rep 1, Tec Rep 1
in situ Hi-C on PDX1-eGFP dCAS9-KRAB H1 with Arima - A1, A2
File
Alignments (bam)
4DNFIJUVIIL1
157.17m
9.03%
10.703%
2.885%
9.569%
0.19%