ExperimentSetReplicate

ExperimentSet4DNESL9NS1I9
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ATAC-seq on Epiblast stem cells (EPISC) 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 
in vitro differentiated cells
Sample 
KH2 ESC differentiated to stem cell
Experiment Type(s) 
ATAC-seq
Modification Type 
None
Treatment Type 
None
Assay Details 
None

6 Processed Files

Quality Metrics

Experiment
For File
Percent mitochondrial reads
Nonredundant Read Fraction (NRF)
PCR Bottleneck Coefficient (PBC)
Filtered & Deduped Reads
Report
Details
Experiment
4DNEXY63T8RI
Bio Rep 1, Tec Rep 1
ATAC-seq on KH2 ESC differentiated to stem cell
File
Read Positions (bed)
4DNFIOF2WRMR
24.01%
0.97
0.97
7.11m
Experiment
4DNEXIQ157EW
Bio Rep 2, Tec Rep 1
ATAC-seq on KH2 ESC differentiated to stem cell
File
Read Positions (bed)
4DNFISWLJ4Q2
25.49%
0.96
0.96
10.28m
Experiment
4DNEX59OYYI3
Bio Rep 3, Tec Rep 1
ATAC-seq on KH2 ESC differentiated to stem cell
File
Read Positions (bed)
4DNFIJD6RX1P
21.36%
0.96
0.96
10.47m
Experiment
For File
Optimal Peaks
Rescue Ratio
Self Consistency Ratio
Fraction of Reads in Peaks
Report
Details
From Multiple Experiments
4DNESL9NS1I9
Multiple Experiments
File
Peaks (bigbed)
4DNFIOZ4DOWS
88.12k
0.0
1.0
0.11