ExperimentSetReplicate

ExperimentSet4DNES76KXUJ3
released
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Hi-C on Hap1 cells with Wapl 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

16 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNES76KXUJ3
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI6T2UL9Q
708.37m
68.312%
19.253%
12.435%
Experiment
4DNEXFB9M8MX
Bio Rep 1, Tec Rep 1
in situ Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIZI4AP2U
46.73m
65.645%
23.823%
10.532%
Experiment
4DNEXRN5PGA6
Bio Rep 1, Tec Rep 2
in situ Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIEO53L61
292.8m
69.256%
20.702%
10.041%
Experiment
4DNEXJAQSA8D
Bio Rep 1, Tec Rep 3
in situ Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIKBXXF44
65.99m
68.975%
21.013%
10.012%
Experiment
4DNEX7LV55MZ
Bio Rep 2, Tec Rep 1
in situ Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIIW4Y3DZ
158.41m
67.452%
16.494%
16.053%
Experiment
4DNEXFPWLYHY
Bio Rep 2, Tec Rep 2
in situ Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIEW3U45Y
144.44m
67.903%
17.056%
15.042%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES76KXUJ3
Multiple Experiments
File
Contact Matrix (mcool)
4DNFILU5P5GI
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXFB9M8MX
Bio Rep 1, Tec Rep 1
in situ Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFI1TYFRHN
61.47m
6.437%
10.524%
0.582%
6.436%
0.16%
Experiment
4DNEXRN5PGA6
Bio Rep 1, Tec Rep 2
in situ Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIW48LIGE
435.61m
6.7%
7.647%
8.562%
9.875%
0.12%
Experiment
4DNEXJAQSA8D
Bio Rep 1, Tec Rep 3
in situ Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFI43TG4R5
96.02m
7.492%
7.663%
5.844%
10.273%
0.122%
Experiment
4DNEX7LV55MZ
Bio Rep 2, Tec Rep 1
in situ Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFI7S11TAP
230.59m
7.005%
7.917%
5.606%
10.775%
0.136%
Experiment
4DNEXFPWLYHY
Bio Rep 2, Tec Rep 2
in situ Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIY1LANRI
209.43m
7.109%
7.9%
5.347%
10.676%
0.136%