ExperimentSetReplicate

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ExperimentSet4DNES4T1TMBA
released
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in situ Hi-C on wild-type WTC-11 iPSC cells differentiated for 4 days to atrial cardiac myocytes.

   December 18th, 2024 at 5:04pm
Source Publication
Dose-dependent sensitivity of human 3D chromatin to a heart disease-linked transcription factor.
Grant ZL, Kuang S, et al., bioRxiv : the preprint server for biology 2025

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
in vitro differentiated cells
Sample 
WTC-11 differentiated to cardiogenic mesoderm
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: DdeI and DpnII

10 Processed Files

    Explore Data

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Experiment
File
File Type
File Size
From Multiple Experiments
4DNES4T1TMBA
Multiple Experiments
File
4DNFI67XZJU2
contact list-combined (pairs)
13.22 GB
File
4DNFI7PCOZ9I
contact matrix (hic)
4.28 GB
File
4DNFIUD4ECSX
contact matrix (mcool)
2.86 GB
File
4DNFIGWXQL1Z
compartments (bw)
203.53 kB
File
4DNFIA47LT2C
boundaries (bed)
168.53 kB
File
4DNFIXECHGRY
insulation score-diamond (bw)
7.96 MB
Experiment
4DNEX2Z5D3PK
Bio Rep 1, Tec Rep 1
in situ Hi-C on WTC-11 differentiated to cardiogenic mesoderm with DdeI and DpnII
File
4DNFI163PKRE
alignments (bam)
98.06 GB
File
4DNFINCRYQHX
contact list-replicate (pairs)
5.9 GB
Experiment
4DNEXU6ZAOM6
Bio Rep 2, Tec Rep 1
in situ Hi-C on WTC-11 differentiated to cardiogenic mesoderm with DdeI and DpnII
File
4DNFIVZXKLCY
alignments (bam)
145.84 GB
File
4DNFI53RVBYS
contact list-replicate (pairs)
8.58 GB

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNES4T1TMBA
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI67XZJU2
777.71m
38.509%
45.928%
15.563%
Experiment
4DNEX2Z5D3PK
Bio Rep 1, Tec Rep 1
in situ Hi-C on WTC-11 differentiated to cardiogenic mesoderm with DdeI and DpnII
File
Contact List-replicate (pairs)
4DNFINCRYQHX
339.19m
37.563%
46.332%
16.105%
Experiment
4DNEXU6ZAOM6
Bio Rep 2, Tec Rep 1
in situ Hi-C on WTC-11 differentiated to cardiogenic mesoderm with DdeI and DpnII
File
Contact List-replicate (pairs)
4DNFI53RVBYS
493.45m
39.369%
44.101%
16.53%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES4T1TMBA
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIUD4ECSX
None