ExperimentSetReplicate

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ExperimentSet4DNESU9VIEWW
released
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dilution Hi-C on SMC2-mAID cells in prophase (75m post G2 block, SMC2-)

   October 30th, 2018 at 2:37pm
Source Publication
A pathway for mitotic chromosome formation.
Gibcus JH, Samejima K, et al., Science (New York, N.Y.) 2018

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
G. gallus
Sample Type 
immortalized cells
Sample 
DT40 with random integration of GFP and AID-tagged SMC2 gene, random integration of X. laevis Cdk1, CDK1 disruption, random integration of SMC2 gene, SMC2 gene deletion
Experiment Type(s) 
Dilution Hi-C
Modification Type 
None
Treatment Type 
Chemical
Assay Details 
Enzyme: HindIII

6 Processed Files

    Explore Data

Loading
Experiment
File
File Type
File Size
Notes
From Multiple Experiments
4DNESU9VIEWW
Multiple Experiments
File
4DNFI53SYEE2
contact list-combined (pairs)
1.45 GB
-
File
4DNFID56VJGW
contact matrix (hic)
882.22 MB
-
File
4DNFI5Z8TWPP
contact matrix (mcool)
602.38 MB
File
4DNFI5VN28ZW
compartments (bw)
98.71 kB
-
Experiment
4DNEXQEQLXHG
Bio Rep 1, Tec Rep 1
Dilution Hi-C on DT40 with random integration of GFP and AID-tagged SMC2 gene, random integration of X. laevis Cdk1, CDK1 disruption, random integration of SMC2 gene, SMC2 gene deletion with HindIII
File
4DNFIJC5M33J
alignments (bam)
16.79 GB
-
File
4DNFIVDOI3A5
contact list-replicate (pairs)
1.45 GB
-

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNESU9VIEWW
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI53SYEE2
84.31m
17.966%
34.508%
47.526%
Experiment
4DNEXQEQLXHG
Bio Rep 1, Tec Rep 1
Dilution Hi-C on DT40 with random integration of GFP and AID-tagged SMC2 gene, random integration of X. laevis Cdk1, CDK1 disruption, random integration of SMC2 gene, SMC2 gene deletion with HindIII
File
Contact List-replicate (pairs)
4DNFIVDOI3A5
84.31m
17.966%
34.508%
47.526%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESU9VIEWW
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI5Z8TWPP
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXQEQLXHG
Bio Rep 1, Tec Rep 1
Dilution Hi-C on DT40 with random integration of GFP and AID-tagged SMC2 gene, random integration of X. laevis Cdk1, CDK1 disruption, random integration of SMC2 gene, SMC2 gene deletion with HindIII
File
Alignments (bam)
4DNFIJC5M33J
164.33m
19.586%
9.283%
19.823%
0.002%
0.315%