ExperimentSetReplicate

ExperimentSet4DNESKKSKG7Y
released
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Replicates of untreated F123 CAST X 129 mouse cells containing a genomically modified AID-tagged CTCF prepared for in situ Hi-C

   May 27th, 2018 at 4:58am
Source Publication
Promoter-proximal CTCF binding promotes distal enhancer-dependent gene activation.
Kubo N, Ishii H, et al., Nature structural & molecular biology 2021

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
stem cells
Sample 
F123-CASTx129 (Tier 2)
Experiment Type(s) 
in situ Hi-C
Modification Type 
  1. Crispr
  2. Stable Transfection
Treatment Type 
None
Assay Details 
Enzyme: MboI

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESKKSKG7Y
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIASLBBXV
1.07 billion
56.457%
30.708%
12.835%
Experiment
4DNEXNT6XXHX
Bio Rep 1, Tec Rep 1
in situ Hi-C on F123-CASTx129 (Tier 2) with MboI
File
Contact List-replicate (pairs)
4DNFICLCWWLH
425.95m
48.028%
40.304%
11.668%
Experiment
4DNEXB65W9GS
Bio Rep 2, Tec Rep 1
in situ Hi-C on F123-CASTx129 (Tier 2) with MboI
File
Contact List-replicate (pairs)
4DNFIBDZ8KDQ
646.65m
62.01%
24.387%
13.603%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESKKSKG7Y
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI5QJNFAT
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXNT6XXHX
Bio Rep 1, Tec Rep 1
in situ Hi-C on F123-CASTx129 (Tier 2) with MboI
File
Alignments (bam)
4DNFIDUIS6ZP
1.3 billion
11.274%
28.745%
27.075%
0.081%
0.061%
Experiment
4DNEXB65W9GS
Bio Rep 2, Tec Rep 1
in situ Hi-C on F123-CASTx129 (Tier 2) with MboI
File
Alignments (bam)
4DNFIS2GCO8H
1.15 billion
11.123%
24.171%
8.233%
0.074%
0.078%