ExperimentSetReplicate

ExperimentSet4DNESQSPD7TW
released
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In situ Hi-C with DdeI on HFF cells with 1% Formaldehyde crosslinking

   June 27th, 2020 at 6:56pm
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 
HFF-hTERT
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: DdeI

8 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESQSPD7TW
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIZ7UYHNJ
155.19m
44.862%
25.387%
29.751%
Experiment
4DNEXXEAFS42
Bio Rep 1, Tec Rep 1
in situ Hi-C on HFF-hTERT with DdeI
File
Contact List-replicate (pairs)
4DNFIOSZW1FX
155.19m
44.862%
25.387%
29.751%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESQSPD7TW
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIBMUF5Y6
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXXEAFS42
Bio Rep 1, Tec Rep 1
in situ Hi-C on HFF-hTERT with DdeI
File
Alignments (bam)
4DNFI7TCUS3E
357.41m
15.202%
18.503%
22.872%
0.004%
0.106%