ExperimentSetReplicate

ExperimentSet4DNESIYG3BXA
released

Hi-C of CTCF-AID washed off mouse embryonic stem cells after being treated with auxin

   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
4DNESIYG3BXA
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI2OAAIYD
527.73m
48.935%
25.323%
25.743%
File
Contact List-replicate (pairs)
4DNFIKD14G6D
301.7m
50.09%
21.517%
28.393%
File
Contact List-replicate (pairs)
4DNFIOKVW9SW
226.03m
47.393%
30.402%
22.205%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESIYG3BXA
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIA2MNT2W
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
File
Alignments (bam)
4DNFIOOT2FPO
502.2m
10.316%
13.363%
11.007%
5.238%
0.096%
File
Alignments (bam)
4DNFIDOFFL7H
428.31m
9.83%
13.246%
18.394%
5.759%
0.122%