ExperimentSetReplicate

ExperimentSet4DNES4GDH4BG
released
View JSON

in situ Hi-C on CH12 (CH12-CTCF-mZF9-11)

   November 27th, 2018 at 6:26pm
Source Publication
The Energetics and Physiological Impact of Cohesin Extrusion.
Vian L, Pekowska A, et al., Cell 2018

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
immortalized cells
Sample 
CH12
Experiment Type(s) 
in situ Hi-C
Modification Type 
Crispr
Treatment Type 
None
Assay Details 
Enzyme: MboI

54 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNES4GDH4BG
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIVPL53FC
1.16 billion
45.228%
30.789%
23.983%
Experiment
4DNEXRXA8LXQ
Bio Rep 1, Tec Rep 1
in situ Hi-C on CH12 with MboI
File
Contact List-replicate (pairs)
4DNFIPKNUOX5
20.88m
39.983%
43.435%
16.582%
Experiment
4DNEXD9YHU2D
Bio Rep 2, Tec Rep 1
in situ Hi-C on CH12 with MboI
File
Contact List-replicate (pairs)
4DNFIL6JUA4M
12.3m
46.168%
36.232%
17.601%
Experiment
4DNEX4BTSE1F
Bio Rep 3, Tec Rep 1
in situ Hi-C on CH12 with MboI
File
Contact List-replicate (pairs)
4DNFIOSR5HJR
8.36m
43.349%
37.045%
19.606%
Experiment
4DNEXDDVAFUH
Bio Rep 4, Tec Rep 1
in situ Hi-C on CH12 with MboI
File
Contact List-replicate (pairs)
4DNFIW9SYO8E
17.12m
48.904%
34.218%
16.878%
Experiment
4DNEXFUEI5EM
Bio Rep 5, Tec Rep 1
in situ Hi-C on CH12 with MboI
File
Contact List-replicate (pairs)
4DNFIEFV1DLE
5.81m
48.025%
28.959%
23.016%
Experiment
4DNEXAK9CG4Z
Bio Rep 6, Tec Rep 1
in situ Hi-C on CH12 with MboI
File
Contact List-replicate (pairs)
4DNFIQCLX8EL
10.33m
51.85%
26.462%
21.688%
Show 18 More
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES4GDH4BG
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIS5ZK13C
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXRXA8LXQ
Bio Rep 1, Tec Rep 1
in situ Hi-C on CH12 with MboI
File
Alignments (bam)
4DNFI3BRIISF
28.97m
5.218%
17.329%
2.213%
3.181%
0.132%
Experiment
4DNEXD9YHU2D
Bio Rep 2, Tec Rep 1
in situ Hi-C on CH12 with MboI
File
Alignments (bam)
4DNFIEGRHE7V
17.31m
5.874%
17.887%
1.901%
3.316%
0.136%
Experiment
4DNEX4BTSE1F
Bio Rep 3, Tec Rep 1
in situ Hi-C on CH12 with MboI
File
Alignments (bam)
4DNFIAOLT6AB
12.39m
5.772%
20.791%
2.193%
3.77%
0.14%
Experiment
4DNEXDDVAFUH
Bio Rep 4, Tec Rep 1
in situ Hi-C on CH12 with MboI
File
Alignments (bam)
4DNFIIK5AQQU
24.4m
6.431%
17.774%
2.021%
3.587%
0.13%
Experiment
4DNEXFUEI5EM
Bio Rep 5, Tec Rep 1
in situ Hi-C on CH12 with MboI
File
Alignments (bam)
4DNFIJ713Q1T
8.65m
5.981%
20.883%
1.85%
4.089%
0.15%
Experiment
4DNEXAK9CG4Z
Bio Rep 6, Tec Rep 1
in situ Hi-C on CH12 with MboI
File
Alignments (bam)
4DNFIVLVBR9A
15.13m
6.166%
19.567%
1.911%
4.099%
0.136%
Experiment
4DNEXFKQ9P2C
Bio Rep 7, Tec Rep 1
in situ Hi-C on CH12 with MboI
File
Alignments (bam)
4DNFINNU6XK5
10.9m
6.184%
21.506%
1.925%
4.298%
0.159%
Show 17 More