ExperimentSetReplicate

ExperimentSet4DNESIF5UIQE
released

H3K4me3 PLAC-seq on HFFc6 Tier cells

   January 26th, 2018 at 9:42pm

Data Usage Guidelines  


Data Use Guidelines: This is a data set generated by the 4DN Network and made freely available to the scientific community. If you are intending to use these data for a publication, we ask that you please contact the data generating lab to discuss possible coordinated publication. In your manuscript, please cite the 4DN White Paper (doi:10.1038/nature23884) and the 4DN Data Portal paper (doi:10.1038/s41467-022-29697-4), and please acknowledge the 4DN lab which generated the data. Please direct any questions to the Data Coordination and Integration Center.


Experiment Set Properties  


Set Type 
Replicate
Organism 
Sample Type 
immortalized cells
Experiment Type(s) 
Modification Type 
None
Treatment Type 
None
Assay Details 
Target: H3K4me3

7 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESIF5UIQE
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI5NBOQL6
134.81m
59.995%
23.874%
16.131%
Experiment
4DNEXANS985X
Bio Rep 1, Tec Rep 1
PLAC-seq against H3K4me3 on HFFc6 (Tier 1)
File
Contact List-replicate (pairs)
4DNFISBCWNBV
69.2m
59.914%
23.886%
16.2%
Experiment
4DNEXIUJ7REK
Bio Rep 2, Tec Rep 1
PLAC-seq against H3K4me3 on HFFc6 (Tier 1)
File
Contact List-replicate (pairs)
4DNFIH69H81W
65.61m
60.081%
23.861%
16.058%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESIF5UIQE
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI9REIU8H
1000; 2000; 5000; 10000; 25000; 50000; 100000; 250000; 500000; 1000000; 2500000; 5000000; 10000000
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXANS985X
Bio Rep 1, Tec Rep 1
PLAC-seq against H3K4me3 on HFFc6 (Tier 1)
File
Alignments (bam)
4DNFININFL2K
167.79m
12.902%
11.117%
26.315%
8.424%
0.164%
Experiment
4DNEXIUJ7REK
Bio Rep 2, Tec Rep 1
PLAC-seq against H3K4me3 on HFFc6 (Tier 1)
File
Alignments (bam)
4DNFIO4WVNZH
167.81m
13.818%
11.029%
27.728%
8.327%
0.17%