ExperimentSetReplicate

ExperimentSet4DNESNLXBFMY
released

Hi-C on Hap1 cells with Scc4 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 
Sample Type 
immortalized cells
Sample 
Experiment Type(s) 
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
4DNESNLXBFMY
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIZHXN3UE
416.01m
59.119%
22.309%
18.572%
Experiment
4DNEXV5HTNBS
Bio Rep 1, Tec Rep 1
in situ Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIVNCTHHT
41.93m
55.305%
21.681%
23.014%
Experiment
4DNEXUYGDZDK
Bio Rep 1, Tec Rep 2
in situ Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFI8LRS9GC
298.65m
59.5%
22.412%
18.089%
Experiment
4DNEXUL8YRCT
Bio Rep 1, Tec Rep 3
in situ Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIA6FB6FB
75.44m
59.734%
22.25%
18.016%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESNLXBFMY
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIOND1BJD
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXV5HTNBS
Bio Rep 1, Tec Rep 1
in situ Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFI2Z869FJ
56.49m
6.502%
10.886%
0.61%
7.788%
0.199%
Experiment
4DNEXUYGDZDK
Bio Rep 1, Tec Rep 2
in situ Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFI8WE865N
486.7m
7.033%
7.773%
12.777%
11.055%
0.114%
Experiment
4DNEXUL8YRCT
Bio Rep 1, Tec Rep 3
in situ Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIDNU1S37
110.27m
7.308%
7.779%
6.233%
10.267%
0.128%