Experiment Set

4DNESCTABFXV
released
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Capture Hi-C on HAP-1 cells with deletion of region 2 E-reverse CTCF site - All used the same clone. 3 different biotinylated bases (ATP, CTP, 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

12 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEX4IKF8FY
Capture Hi-C on HAP-1 with MboI
File
4DNFIIUO7EFI
alignments (bam)
418.02 MB
File
4DNFISXSDGJH
contact list-replicate (pairs)
28.51 MB
Experiment
4DNEXRZJ37CB
Capture Hi-C on HAP-1 with MboI
File
4DNFI6FAAG3G
alignments (bam)
1.92 GB
File
4DNFI9ZFRE7L
contact list-replicate (pairs)
162.79 MB
Experiment
4DNEXVKIGPTN
Capture Hi-C on HAP-1 with MboI
File
4DNFIFFMVZFM
alignments (bam)
630.63 MB
File
4DNFIHQR1GCT
contact list-replicate (pairs)
30.52 MB
Experiment
4DNEX8KBUJ6S
Capture Hi-C on HAP-1 with MboI
File
4DNFIZ2P9JDE
alignments (bam)
1.67 GB
File
4DNFIMUQ1JN9
contact list-replicate (pairs)
140.68 MB
Experiment
4DNEXURO3NJZ
Capture Hi-C on HAP-1 with MboI
File
4DNFIYPSRW7Z
alignments (bam)
2.17 GB
File
4DNFISUCPLVT
contact list-replicate (pairs)
181.38 MB
Experiment
4DNEXJ9DMCWX
Capture Hi-C on HAP-1 with MboI
File
4DNFI9GTDFAG
alignments (bam)
639.37 MB
File
4DNFILKTQCKE
contact list-replicate (pairs)
35.38 MB

Quality Metrics

Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX4IKF8FY
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIIUO7EFI
3.59m
7.536%
11.702%
38.972%
2.474%
0.134%
Experiment
4DNEXRZJ37CB
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFI6FAAG3G
12.79m
6.008%
25.581%
1.262%
6.24%
0.482%
Experiment
4DNEXVKIGPTN
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIFFMVZFM
6.5m
5.705%
9.463%
59.554%
1.791%
0.057%
Experiment
4DNEX8KBUJ6S
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIZ2P9JDE
11.78m
6.14%
20.316%
11.048%
5.043%
0.362%
Experiment
4DNEXURO3NJZ
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIYPSRW7Z
14.68m
5.809%
26.423%
2.644%
5.969%
0.835%
Experiment
4DNEXJ9DMCWX
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFI9GTDFAG
6.19m
6.211%
9.76%
53.908%
1.778%
0.077%
Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
Experiment
4DNEX4IKF8FY
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFISXSDGJH
1.41m
54.767%
23.804%
21.429%
Experiment
4DNEXRZJ37CB
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFI9ZFRE7L
7.79m
47.337%
29.042%
23.622%
Experiment
4DNEXVKIGPTN
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIHQR1GCT
1.53m
54.788%
22.482%
22.73%
Experiment
4DNEX8KBUJ6S
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIMUQ1JN9
6.77m
52.271%
24.749%
22.98%
Experiment
4DNEXURO3NJZ
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFISUCPLVT
8.69m
42.986%
30.019%
26.995%
Experiment
4DNEXJ9DMCWX
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFILKTQCKE
1.75m
51.206%
24.286%
24.508%