ExperimentSetReplicate

ExperimentSet4DNESOAF3QAA
released
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CTCF HiChIP on HG00731 cells

   October 31st, 2024 at 6:30pm
Source Publication
Improved cohesin HiChIP protocol and bioinformatic analysis for robust detection of chromatin loops and stripes.
Buka K, Parteka-Tojek Z, et al., Communications biology 2025

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
immortalized cells
Sample 
HG00731
Experiment Type(s) 
HiChIP
Modification Type 
None
Treatment Type 
None
Assay Details 
Target: CTCF protein

7 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNESOAF3QAA
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIIP6PN3S
100.99m
30.929%
57.506%
11.565%
Experiment
4DNEXABC1PA7
Bio Rep 1, Tec Rep 1
HiChIP against CTCF protein on HG00731
File
Contact List-replicate (pairs)
4DNFIVV1D5M2
60.17m
31.317%
56.205%
12.477%
Experiment
4DNEXGDJU4IZ
Bio Rep 2, Tec Rep 1
HiChIP against CTCF protein on HG00731
File
Contact List-replicate (pairs)
4DNFICCKOCZF
49.12m
31.439%
55.893%
12.667%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESOAF3QAA
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI4XWVUT6
1000; 2000; 5000; 10000; 25000; 50000; 100000; 250000; 500000; 1000000; 2500000; 5000000; 10000000