ExperimentSetReplicate

ExperimentSet4DNESWJXT6RB
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dilution Hi-C on SMC2-mAID cells in G2 (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

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESWJXT6RB
Multiple Experiments
File
Contact List-combined (pairs)
4DNFINICJ3AQ
153.76m
33.657%
31.373%
34.97%
Experiment
4DNEX32NGWEN
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)
4DNFITX6OWC1
44.46m
20.7%
44.726%
34.575%
Experiment
4DNEXBHBPTIB
Bio Rep 2, 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)
4DNFIQ7LGMHG
109.3m
38.928%
25.94%
35.131%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESWJXT6RB
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIZCPYR3I
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX32NGWEN
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)
4DNFINVDKF7P
175.13m
21.941%
8.598%
44.07%
0.002%
0.132%
Experiment
4DNEXBHBPTIB
Bio Rep 2, 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)
4DNFIM3FV8RV
187.07m
18.268%
9.578%
13.725%
0.002%
0.307%