ExperimentSetReplicate

ExperimentSet4DNES87HWQAX
released

Hi-C of untreated CTCF-AID mouse embryonic stem cells

   November 7th, 2018 at 9:12pm

Assay Description  


Note on Processed Files  


Some annotated bam and pairs files generated in this Experiment Set may contain distinct reads that share the same identifier. This was caused by merging fastq files with integer identifiers (eg. @1, @2) during processing.

Experiment Set Properties  


Set Type 
Replicate
Organism 
Biosource Type 
stem cell derived cell line
Biosource 
ES-E14TG2a with random integration of EGFP and AID-tagged CTCF, Tir1 insertion
Experiment Type(s) 
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: HindIII

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNES87HWQAX
Multiple Experiments
File
Contact List-combined (pairs)
4DNFII2WBLB8
556.41m
49.52%
26.899%
23.581%
File
Contact List-replicate (pairs)
4DNFINDTP5NI
302.37m
52.754%
22.424%
24.822%
File
Contact List-replicate (pairs)
4DNFI1E5JAEH
254.04m
45.67%
32.226%
22.104%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES87HWQAX
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI9BMR5E1
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
File
Alignments (bam)
4DNFICYNL7JD
497.19m
10.629%
13.202%
9.949%
5.404%
0.126%
File
Alignments (bam)
4DNFIYB42ZZ7
437.53m
10.315%
13.593%
12.175%
5.855%
0.206%