ExperimentSetReplicate

ExperimentSet4DNES7BZ38JT
released
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SMC1 HiChIP on HG00731 cells with dual crosslinking

   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: SMC1A protein

7 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNES7BZ38JT
Multiple Experiments
File
Contact List-combined (pairs)
4DNFII7KBDQC
128.65m
27.52%
67.989%
4.491%
Experiment
4DNEX5PBDUFR
Bio Rep 1, Tec Rep 1
HiChIP against SMC1A protein on HG00731
File
Contact List-replicate (pairs)
4DNFI52Z76TD
73.96m
28.345%
66.141%
5.514%
Experiment
4DNEXGKZVFJG
Bio Rep 2, Tec Rep 1
HiChIP against SMC1A protein on HG00731
File
Contact List-replicate (pairs)
4DNFITG3QYUV
64.64m
27.292%
67.18%
5.528%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES7BZ38JT
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI942MCWK
1000; 2000; 5000; 10000; 25000; 50000; 100000; 250000; 500000; 1000000; 2500000; 5000000; 10000000