Experiment Set

4DNESKPWEYJV
released
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Capture Hi-C on HAP-1 cells with deletion of region 2 E-forward and reverse CTCF sites - 3 different clones of the modification were used and 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

18 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEXX33SRFJ
Capture Hi-C on HAP-1 with MboI
File
4DNFIOSEIRF4
alignments (bam)
387.31 MB
File
4DNFIGK86M6L
contact list-replicate (pairs)
28.42 MB
Experiment
4DNEXF6CEY13
Capture Hi-C on HAP-1 with MboI
File
4DNFITL616WD
alignments (bam)
89.63 MB
File
4DNFINYPH4LW
contact list-replicate (pairs)
7.45 MB
Experiment
4DNEX47BWKZQ
Capture Hi-C on HAP-1 with MboI
File
4DNFI5M94YX9
alignments (bam)
257.92 MB
File
4DNFIBTBLZPT
contact list-replicate (pairs)
22.26 MB
Experiment
4DNEXMNAPSO2
Capture Hi-C on HAP-1 with MboI
File
4DNFIZ44IOOG
alignments (bam)
321.56 MB
File
4DNFIMN8T3ND
contact list-replicate (pairs)
28.89 MB
Experiment
4DNEX914EZ8N
Capture Hi-C on HAP-1 with MboI
File
4DNFI9FFVKDA
alignments (bam)
246.14 MB
File
4DNFIEIE3ZA2
contact list-replicate (pairs)
21.7 MB
Experiment
4DNEX4XIH9I8
Capture Hi-C on HAP-1 with MboI
File
4DNFIRY9FJV4
alignments (bam)
147.04 MB
File
4DNFIIR9PN72
contact list-replicate (pairs)
13.04 MB
Experiment
4DNEXAKJPY9Y
Capture Hi-C on HAP-1 with MboI
File
4DNFIPW7LRYE
alignments (bam)
204.56 MB
File
4DNFIJVTLLVW
contact list-replicate (pairs)
17.23 MB
Experiment
4DNEX7JISNEA
Capture Hi-C on HAP-1 with MboI
File
4DNFIUGDGG3A
alignments (bam)
166.23 MB
File
4DNFIW581OQ3
contact list-replicate (pairs)
14.85 MB
Experiment
4DNEX1GEXL4R
Capture Hi-C on HAP-1 with MboI
File
4DNFI5238DLJ
alignments (bam)
150.99 MB
File
4DNFIJA2ICDW
contact list-replicate (pairs)
13.89 MB

Quality Metrics

Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXX33SRFJ
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIOSEIRF4
2.39m
5.539%
26.676%
5.016%
4.688%
1.555%
Experiment
4DNEXF6CEY13
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFITL616WD
571.61k
5.536%
20.238%
6.71%
3.205%
2.04%
Experiment
4DNEX47BWKZQ
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFI5M94YX9
1.56m
6.791%
14.75%
5.17%
3.657%
0.485%
Experiment
4DNEXMNAPSO2
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIZ44IOOG
1.99m
5.837%
13.709%
6.568%
2.54%
0.469%
Experiment
4DNEX914EZ8N
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFI9FFVKDA
1.51m
6.326%
14.798%
5.858%
2.737%
0.677%
Experiment
4DNEX4XIH9I8
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIRY9FJV4
908.96k
6.134%
14.947%
5.781%
3.356%
0.674%
Experiment
4DNEXAKJPY9Y
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIPW7LRYE
1.27m
6.005%
18.874%
5.303%
3.487%
1.12%
Experiment
4DNEX7JISNEA
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIUGDGG3A
1.03m
6.083%
12.426%
8.542%
2.807%
0.383%
Experiment
4DNEX1GEXL4R
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFI5238DLJ
950.4k
6.072%
12.282%
7.343%
2.763%
0.41%
Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
Experiment
4DNEXX33SRFJ
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIGK86M6L
1.39m
49.456%
30.177%
20.367%
Experiment
4DNEXF6CEY13
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFINYPH4LW
367.61k
55.572%
23.03%
21.398%
Experiment
4DNEX47BWKZQ
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIBTBLZPT
1.08m
62.29%
17.186%
20.524%
Experiment
4DNEXMNAPSO2
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIMN8T3ND
1.42m
56.255%
22.352%
21.393%
Experiment
4DNEX914EZ8N
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIEIE3ZA2
1.06m
53.476%
25.108%
21.415%
Experiment
4DNEX4XIH9I8
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIIR9PN72
634.29k
53.554%
20.555%
25.891%
Experiment
4DNEXAKJPY9Y
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIJVTLLVW
839.16k
55.376%
21.59%
23.035%
Experiment
4DNEX7JISNEA
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIW581OQ3
721.43k
57.57%
19.538%
22.892%
Experiment
4DNEX1GEXL4R
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIJA2ICDW
679.91k
54.449%
21.803%
23.747%