ExperimentSetReplicate

ExperimentSet4DNESSQU7B76
released
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Hi-C on Hap1 cells with Wapl and Scc4 double knock out

   October 17th, 2018 at 8:57pm
Source Publication
The Cohesin Release Factor WAPL Restricts Chromatin Loop Extension.
Haarhuis JHI, van der Weide RH, et al., Cell 2017

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 
H. sapiens
Sample Type 
immortalized cells
Sample 
HAP-1
Experiment Type(s) 
in situ Hi-C
Modification Type 
Crispr
Treatment Type 
None
Assay Details 
Enzyme: MboI

12 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESSQU7B76
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI6BTR1IC
413.66m
62.123%
22.874%
15.003%
Experiment
4DNEXKKWDEQW
Bio Rep 1, Tec Rep 1
in situ Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFINR5VUSW
42.98m
62.143%
24.251%
13.606%
Experiment
4DNEXNGO8B29
Bio Rep 1, Tec Rep 2
in situ Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFITW2B6ZC
302.9m
62.086%
22.74%
15.174%
Experiment
4DNEXS21OUF6
Bio Rep 1, Tec Rep 3
in situ Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFI83W5N4W
67.78m
62.276%
22.601%
15.123%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESSQU7B76
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIQ6VCXFB
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXKKWDEQW
Bio Rep 1, Tec Rep 1
in situ Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFI2A436G1
56.68m
6.415%
10.714%
0.521%
6.52%
0.163%
Experiment
4DNEXNGO8B29
Bio Rep 1, Tec Rep 2
in situ Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIKRHAFH4
489.2m
7.077%
7.83%
11.838%
11.337%
0.124%
Experiment
4DNEXS21OUF6
Bio Rep 1, Tec Rep 3
in situ Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIYL5CEKQ
98.99m
7.412%
7.837%
5.602%
10.678%
0.14%