ExperimentSetReplicate

ExperimentSet4DNESN22I1UM
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dilution Hi-C on SMC2-mAID cells in prometaphase (75m post G2 block, nocodazole treated, SMC2-, GFP-ve sorted)

   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

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESN22I1UM
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI2DGOB75
65.79m
14.604%
58.026%
27.371%
Experiment
4DNEXZTSXFT3
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)
4DNFIB1ZTOWJ
65.79m
14.604%
58.026%
27.371%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESN22I1UM
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI8XK29K2
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXZTSXFT3
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)
4DNFI1SBTCMP
146.09m
23.466%
10.102%
21.395%
0.003%
0.44%