ExperimentSetReplicate

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ExperimentSet4DNES4NO6DRP
released
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in situ Hi-C on heterozygous Crispr modified TBX5 with 2 bp insertion causing frameshift WTC-11 iPSC cells differentiated for 20 days to artrial 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 cardiac muscle cell
Experiment Type(s) 
in situ Hi-C
Modification Type 
Crispr
Treatment Type 
None
Assay Details 
Enzyme: DdeI and DpnII

10 Processed Files

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Experiment
File
File Type
File Size
From Multiple Experiments
4DNES4NO6DRP
Multiple Experiments
File
4DNFIGTUWJ8O
contact list-combined (pairs)
15.3 GB
File
4DNFIK9TW97H
contact matrix (hic)
4.64 GB
File
4DNFI32RESZT
contact matrix (mcool)
3.12 GB
File
4DNFIA9FISEG
compartments (bw)
203.55 kB
File
4DNFIW2NNZTI
boundaries (bed)
156.5 kB
File
4DNFIRELA2LA
insulation score-diamond (bw)
7.94 MB
Experiment
4DNEXSRQ5AH2
Bio Rep 1, Tec Rep 1
in situ Hi-C on WTC-11 differentiated to cardiac muscle cell with DdeI and DpnII
File
4DNFIOPN7AWK
alignments (bam)
105.63 GB
File
4DNFIAVDPHUH
contact list-replicate (pairs)
7.19 GB
Experiment
4DNEXAFTV8VX
Bio Rep 2, Tec Rep 1
in situ Hi-C on WTC-11 differentiated to cardiac muscle cell with DdeI and DpnII
File
4DNFIKCHVBF2
alignments (bam)
129.88 GB
File
4DNFIMK4Z3FP
contact list-replicate (pairs)
9.56 GB

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNES4NO6DRP
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIGTUWJ8O
924.03m
36.945%
49.463%
13.592%
Experiment
4DNEXSRQ5AH2
Bio Rep 1, Tec Rep 1
in situ Hi-C on WTC-11 differentiated to cardiac muscle cell with DdeI and DpnII
File
Contact List-replicate (pairs)
4DNFIAVDPHUH
416.37m
43.177%
41.18%
15.643%
Experiment
4DNEXAFTV8VX
Bio Rep 2, Tec Rep 1
in situ Hi-C on WTC-11 differentiated to cardiac muscle cell with DdeI and DpnII
File
Contact List-replicate (pairs)
4DNFIMK4Z3FP
572.21m
32.861%
53.454%
13.685%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES4NO6DRP
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI32RESZT
None