ExperimentSetReplicate

ExperimentSet4DNES2P37K7K
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Biological replicates of Capture-C on commd3- G1E-ER4 cells in early G1 phase

   March 3rd, 2020 at 8:07pm
Source Publication
Chromatin structure dynamics during the mitosis-to-G1 phase transition.
Zhang H, Emerson DJ, et al., Nature 2019

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
stem cells
Sample 
G1E-ER4 with commd3 CTCF site deletion, mCherry-MD
Experiment Type(s) 
Capture Hi-C
Modification Type 
None
Treatment Type 
Chemical
Assay Details 
Target: GRCm38:2:18672514-18673054 mouse region

7 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNES2P37K7K
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI3T4YHML
20.49m
3.355%
94.868%
1.777%
Experiment
4DNEX6G3F3CY
Bio Rep 1, Tec Rep 1
Capture Hi-C on G1E-ER4 with commd3 CTCF site deletion, mCherry-MD with DpnII
File
Contact List-replicate (pairs)
4DNFIGMBP2TS
8.96m
2.621%
95.714%
1.665%
Experiment
4DNEXN2U2GYN
Bio Rep 2, Tec Rep 1
Capture Hi-C on G1E-ER4 with commd3 CTCF site deletion, mCherry-MD with DpnII
File
Contact List-replicate (pairs)
4DNFIQXDHCKV
11.53m
3.925%
94.21%
1.864%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES2P37K7K
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIEY1H33K
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
4DNEX6G3F3CY
Bio Rep 1, Tec Rep 1
Capture Hi-C on G1E-ER4 with commd3 CTCF site deletion, mCherry-MD with DpnII
File
Alignments (bam)
4DNFIUHVPLGL
29.66m
2.775%
23.198%
43.309%
0.506%
0.071%
Experiment
4DNEXN2U2GYN
Bio Rep 2, Tec Rep 1
Capture Hi-C on G1E-ER4 with commd3 CTCF site deletion, mCherry-MD with DpnII
File
Alignments (bam)
4DNFIUXEES1L
41.93m
2.676%
23.884%
45.251%
0.687%
0.059%