ExperimentSetReplicate

ExperimentSet4DNESWQ4K74H
released
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Capture Hi-C on HAP-1 cells with inversion of region 1 B-forward CTCF site and inversion of region 1 B-reverse CTCF site

   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 
Replicate
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

11 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNESWQ4K74H
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIA3HP8UK
35.05m
53.651%
24.602%
21.747%
Experiment
4DNEXCGG8BKP
Bio Rep 1, Tec Rep 1
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIT3D7P5N
9.1m
52.823%
25.344%
21.833%
Experiment
4DNEXMCKZQUA
Bio Rep 1, Tec Rep 2
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIJCD92IB
8.67m
54.685%
22.905%
22.41%
Experiment
4DNEXWQOA5OG
Bio Rep 1, Tec Rep 3
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIV39S65V
8.39m
53.846%
24.958%
21.196%
Experiment
4DNEXT66BJKO
Bio Rep 1, Tec Rep 4
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIDIYN1II
8.89m
53.307%
25.161%
21.532%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESWQ4K74H
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIFQHSCES
1000; 2000; 5000; 10000; 25000; 50000; 100000; 250000; 500000; 1000000; 2500000; 5000000; 10000000
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXCGG8BKP
Bio Rep 1, Tec Rep 1
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFI3USDGMY
14.57m
5.937%
23.073%
2.774%
5.735%
0.509%
Experiment
4DNEXMCKZQUA
Bio Rep 1, Tec Rep 2
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIYBG8OF2
13.7m
5.978%
21.533%
3.954%
5.255%
0.424%
Experiment
4DNEXWQOA5OG
Bio Rep 1, Tec Rep 3
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIG7AM9CL
13.59m
6.054%
22.063%
4.81%
5.334%
0.582%
Experiment
4DNEXT66BJKO
Bio Rep 1, Tec Rep 4
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFITBXKYLP
14.25m
5.91%
22.183%
4.475%
5.06%
0.645%