ExperimentSetReplicate

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ExperimentSet4DNESXF7RIFP
released
View JSON

CTCC experiments with in-situ crosslinking without restriction digestion without SDS 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 
None

5 Processed Files

    Explore Data

Loading
Experiment
File
File Type
File Size
Notes
From Multiple Experiments
4DNESXF7RIFP
Multiple Experiments
File
4DNFIA1TMUBO
contact list-combined (pairs)
2.16 GB
-
File
4DNFIFJFDQZ9
contact matrix (hic)
905.91 MB
-
File
4DNFIVAC7CRD
contact matrix (mcool)
508.35 MB
Experiment
4DNEXIEUTKET
Bio Rep 1, Tec Rep 1
TCC on GM12878 (Tier 1)
File
4DNFIL84L984
alignments (bam)
64.26 GB
-
File
4DNFI7QKBHSA
contact list-replicate (pairs)
2.16 GB
-

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNESXF7RIFP
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIA1TMUBO
129.1m
8.142%
80.992%
10.866%
Experiment
4DNEXIEUTKET
Bio Rep 1, Tec Rep 1
TCC on GM12878 (Tier 1)
File
Contact List-replicate (pairs)
4DNFI7QKBHSA
129.1m
8.142%
80.992%
10.866%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESXF7RIFP
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIVAC7CRD
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXIEUTKET
Bio Rep 1, Tec Rep 1
TCC on GM12878 (Tier 1)
File
Alignments (bam)
4DNFIL84L984
353.73m
35.551%
5.321%
11.473%
11.158%
0.417%