ExperimentSetReplicate

ExperimentSet4DNESNHBSICL
released
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CTCC experiments with in vitro crosslinking with HindIII digestion on GM12878 cells

   January 25th, 2022 at 4:56pm
Source Publication
Cryomilling Tethered Chromatin Conformation Capture reveal new insights into inter-chromosomal interactions
Xu J, Kumar S, et al., bioRxiv 2022

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
immortalized cells
Sample 
GM12878 (Tier 1)
Experiment Type(s) 
TCC
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: HindIII

7 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESNHBSICL
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIR8VLPEC
437.93m
30.365%
32.069%
37.566%
Experiment
4DNEX79VKPTN
Bio Rep 1, Tec Rep 1
TCC on GM12878 (Tier 1) with HindIII
File
Contact List-replicate (pairs)
4DNFIZF4U9O1
425.35m
30.359%
31.649%
37.992%
Experiment
4DNEXHWIA4PP
Bio Rep 1, Tec Rep 2
TCC on GM12878 (Tier 1) with HindIII
File
Contact List-replicate (pairs)
4DNFIHGQ3NB8
12.58m
30.56%
46.275%
23.165%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESNHBSICL
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIXEOGJXN
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX79VKPTN
Bio Rep 1, Tec Rep 1
TCC on GM12878 (Tier 1) with HindIII
File
Alignments (bam)
4DNFIJQZ13TN
893.53m
16.606%
7.563%
20.521%
7.706%
0.41%
Experiment
4DNEXHWIA4PP
Bio Rep 1, Tec Rep 2
TCC on GM12878 (Tier 1) with HindIII
File
Alignments (bam)
4DNFIOFJT2QV
19.5m
13.213%
7.44%
9.072%
5.773%
0.754%