ExperimentSetReplicate

ExperimentSet4DNESAYAR38K
released
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ATAC-seq on Extra embryonic stem cells (XEN) from mouse

   December 4th, 2023 at 7:38pm
Source Publication
Systematic mapping and modeling of 3D enhancer-promoter interactions in early mouse embryonic lineages reveal regulatory principles that determine the levels and cell-type specificity of gene expression.
Murphy D, Salataj E, et al., bioRxiv : the preprint server for biology 2023

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
stem cells
Sample 
extraembryonic cell
Experiment Type(s) 
ATAC-seq
Modification Type 
None
Treatment Type 
None
Assay Details 
None

5 Processed Files

Quality Metrics

Experiment
For File
Percent mitochondrial reads
Nonredundant Read Fraction (NRF)
PCR Bottleneck Coefficient (PBC)
Filtered & Deduped Reads
Report
Details
Experiment
4DNEXZ757A97
Bio Rep 1, Tec Rep 1
ATAC-seq on extraembryonic cell
File
Read Positions (bed)
4DNFIXVAKPJF
4.39%
0.83
0.84
14.26m
Experiment
4DNEXO62ZO2K
Bio Rep 2, Tec Rep 1
ATAC-seq on extraembryonic cell
File
Read Positions (bed)
4DNFI3QKDKZF
4.67%
0.63
0.66
22.98m
Experiment
For File
Optimal Peaks
Rescue Ratio
Self Consistency Ratio
Fraction of Reads in Peaks
Report
Details
From Multiple Experiments
4DNESAYAR38K
Multiple Experiments
File
Peaks (bigbed)
4DNFIT3WQSZB
92.39k
1.0
1.21
0.35