ExperimentSetReplicate

ExperimentSet4DNESH5YI3CM
released
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Hi-C experiments on HFFc6 crosslinked with both FA and DSG, digested with DdeI.

   June 24th, 2020 at 8:17pm
Source Publication
Systematic evaluation of chromosome conformation capture assays.
Akgol Oksuz B, Yang L, et al., Nature methods 2021

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
immortalized cells
Sample 
HFFc6 (Tier 1)
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: DdeI

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESH5YI3CM
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI8YIHWY9
2.67 billion
49.769%
41.884%
8.346%
Experiment
4DNEX95OQ954
Bio Rep 1, Tec Rep 1
in situ Hi-C on HFFc6 (Tier 1) with DdeI
File
Contact List-replicate (pairs)
4DNFIEPZKDJE
1.35 billion
50.584%
40.531%
8.885%
Experiment
4DNEX2SUQP87
Bio Rep 2, Tec Rep 1
in situ Hi-C on HFFc6 (Tier 1) with DdeI
File
Contact List-replicate (pairs)
4DNFI71OH4WW
1.32 billion
48.94%
43.263%
7.797%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESH5YI3CM
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIGBKMVCD
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX95OQ954
Bio Rep 1, Tec Rep 1
in situ Hi-C on HFFc6 (Tier 1) with DdeI
File
Alignments (bam)
4DNFIUHHOTQG
2.54 billion
13.145%
16.754%
17.06%
0.004%
0.056%
Experiment
4DNEX2SUQP87
Bio Rep 2, Tec Rep 1
in situ Hi-C on HFFc6 (Tier 1) with DdeI
File
Alignments (bam)
4DNFI7AE8IGU
3.12 billion
13.344%
17.278%
26.961%
0.004%
0.045%