Experiment Set

4DNES9KMYIKW
released
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Capture Hi-C on HAP-1 cells with region 3 CTCF site G insertion - All used the same clone. 2 different biotinylated bases (ATP, UTP) were used for tagging.

   April 10th, 2017 at 1:11am
Source Publication
Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes.
Sanborn AL, Rao SS, et al., Proceedings of the National Academy of Sciences of the United States of America 2015

Experiment Set Properties  

Set Type 
Custom
Organism 
H. sapiens
Sample Type 
immortalized cells
Sample 
HAP-1
Experiment Type(s) 
Capture Hi-C
Modification Type 
Crispr
Treatment Type 
None
Assay Details 
Target: GRCh38:1:179830865-181830865 region, GRCh38:5:30999893-32999894 region, GRCh38:8:131987753-133987757 region

6 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEX83M7A57
Capture Hi-C on HAP-1 with MboI
File
4DNFITCEBWMK
alignments (bam)
992.91 MB
File
4DNFIF79FS7Z
contact list-replicate (pairs)
68.73 MB
Experiment
4DNEXCQ2ZNXO
Capture Hi-C on HAP-1 with MboI
File
4DNFIC7A9GRO
alignments (bam)
384.28 MB
File
4DNFIIWJWJV5
contact list-replicate (pairs)
31.64 MB
Experiment
4DNEXFETO9VX
Capture Hi-C on HAP-1 with MboI
File
4DNFI7LRUAAQ
alignments (bam)
315.06 MB
File
4DNFIKQO3N4X
contact list-replicate (pairs)
21.17 MB

Quality Metrics

Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX83M7A57
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFITCEBWMK
6.01m
5.518%
29.721%
3.639%
5.246%
3.87%
Experiment
4DNEXCQ2ZNXO
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIC7A9GRO
2.31m
5.587%
20.287%
4.261%
4.279%
1.785%
Experiment
4DNEXFETO9VX
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFI7LRUAAQ
1.91m
5.498%
29.346%
6.076%
6.204%
3.101%
Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
Experiment
4DNEX83M7A57
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIF79FS7Z
3.36m
54.033%
25.997%
19.97%
Experiment
4DNEXCQ2ZNXO
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIIWJWJV5
1.51m
51.801%
13.826%
34.374%
Experiment
4DNEXFETO9VX
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIKQO3N4X
1.01m
53.36%
14.448%
32.192%