ExperimentSetReplicate

ExperimentSet4DNESRJOEEPP
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CTCF PLAC-seq on F123 cells

   September 21st, 2018 at 5:51pm
Source Publication
MAPS: Model-based analysis of long-range chromatin interactions from PLAC-seq and HiChIP experiments.
Juric I, Yu M, et al., PLoS computational biology 2019

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
stem cells
Sample 
F123-CASTx129 (Tier 2)
Experiment Type(s) 
PLAC-seq
Modification Type 
None
Treatment Type 
None
Assay Details 
Target: CTCF protein

7 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESRJOEEPP
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIDW7AX5W
112.58m
53.58%
35.882%
10.538%
Experiment
4DNEX7I3SHWN
Bio Rep 1, Tec Rep 1
PLAC-seq against CTCF protein on F123-CASTx129 (Tier 2)
File
Contact List-replicate (pairs)
4DNFITDQIHYZ
58.07m
53.87%
35.223%
10.907%
Experiment
4DNEXDNNM43C
Bio Rep 2, Tec Rep 1
PLAC-seq against CTCF protein on F123-CASTx129 (Tier 2)
File
Contact List-replicate (pairs)
4DNFIRQIWFTH
54.51m
53.271%
36.583%
10.146%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESRJOEEPP
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI2T9NYFV
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
4DNEX7I3SHWN
Bio Rep 1, Tec Rep 1
PLAC-seq against CTCF protein on F123-CASTx129 (Tier 2)
File
Alignments (bam)
4DNFIOJ3CB6Q
162.76m
9.793%
12.764%
33.43%
8.337%
0.08%
Experiment
4DNEXDNNM43C
Bio Rep 2, Tec Rep 1
PLAC-seq against CTCF protein on F123-CASTx129 (Tier 2)
File
Alignments (bam)
4DNFIX7CTGEP
183.05m
10.041%
12.537%
39.446%
8.195%
0.05%