ExperimentSetReplicate

ExperimentSet4DNESP4MARXG
released
View JSON

Micro-C on definitive endoderm derived from H1 embryonic stem cells (Maehr lab protocol) with 1% Formaldehyde and 3mM DSG 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

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
in vitro differentiated cells
Sample 
H1-hESC differentiated to definitive endoderm
Experiment Type(s) 
Micro-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MNase

8 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESP4MARXG
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIH3CQYRW
188.79m
24.519%
57.145%
18.336%
Experiment
4DNEXML4UEI5
Bio Rep 1, Tec Rep 1
Micro-C on H1-hESC differentiated to definitive endoderm with MNase
File
Contact List-replicate (pairs)
4DNFIXNZX3KR
188.79m
24.519%
57.145%
18.336%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESP4MARXG
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI9E222YJ
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXML4UEI5
Bio Rep 1, Tec Rep 1
Micro-C on H1-hESC differentiated to definitive endoderm with MNase
File
Alignments (bam)
4DNFIS1EP1VT
362.16m
7.379%
19.337%
21.151%
0.004%
0.101%