ExperimentSetReplicate

ExperimentSet4DNES1INHSG7
released
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Replicates of Hi-C on H9 hESC cells, containing a MYL2-H2B-GFP marker for cardiocytes, at day 0 differentiation - undifferentiated.

   August 7th, 2019 at 5:53pm
Source Publication
Transcriptionally active HERV-H retrotransposons demarcate topologically associating domains in human pluripotent stem cells.
Zhang Y, Li T, et al., Nature genetics 2019

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
stem cells
Sample 
H9 with targeted integration of GFP-tagged MYL2
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNES1INHSG7
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIF8815WO
2.25 billion
57.91%
22.42%
19.67%
Experiment
4DNEXY6Y2VBZ
Bio Rep 1, Tec Rep 1
in situ Hi-C on H9 with targeted integration of GFP-tagged MYL2 with MboI
File
Contact List-replicate (pairs)
4DNFIAOXOR6N
966.1m
57.205%
23.54%
19.255%
Experiment
4DNEXT3JPH6B
Bio Rep 2, Tec Rep 1
in situ Hi-C on H9 with targeted integration of GFP-tagged MYL2 with MboI
File
Contact List-replicate (pairs)
4DNFIIG9A6PD
1.28 billion
58.44%
21.577%
19.982%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES1INHSG7
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIT5YVTLO
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXY6Y2VBZ
Bio Rep 1, Tec Rep 1
in situ Hi-C on H9 with targeted integration of GFP-tagged MYL2 with MboI
File
Alignments (bam)
4DNFIY89DBOK
1.5 billion
8.902%
10.987%
10.886%
4.908%
0.071%
Experiment
4DNEXT3JPH6B
Bio Rep 2, Tec Rep 1
in situ Hi-C on H9 with targeted integration of GFP-tagged MYL2 with MboI
File
Alignments (bam)
4DNFIRGUR82F
2.1 billion
8.751%
11.008%
14.203%
4.839%
0.07%