ExperimentSetReplicate

ExperimentSet4DNESGEEV6TJ
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Replicates of in situ DNase Hi-C on HeLa cells transfected with scrambled siRNA

   October 16th, 2018 at 10:35pm
Source Publication
Systematic proteomics of endogenous human cohesin reveals an interaction with diverse splicing factors and RNA-binding proteins required for mitotic progression.
Kim JS, He X, et al., The Journal of biological chemistry 2019

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
immortalized cells
Sample 
HeLa-S3
Experiment Type(s) 
DNase Hi-C
Modification Type 
None
Treatment Type 
RNAi
Assay Details 
Enzyme: DNaseI

7 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESGEEV6TJ
Multiple Experiments
File
Contact List-combined (pairs)
4DNFISDBD9PO
197.51m
8.158%
84.677%
7.166%
Experiment
4DNEXSRILLQI
Bio Rep 1, Tec Rep 1
DNase Hi-C on HeLa-S3 with DNaseI
File
Contact List-replicate (pairs)
4DNFICZ94KJD
92.43m
9.39%
83.348%
7.262%
Experiment
4DNEXZ3C2HEZ
Bio Rep 2, Tec Rep 1
DNase Hi-C on HeLa-S3 with DNaseI
File
Contact List-replicate (pairs)
4DNFIYCP7T2H
105.08m
7.074%
85.845%
7.081%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESGEEV6TJ
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIR9N91G1
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXSRILLQI
Bio Rep 1, Tec Rep 1
DNase Hi-C on HeLa-S3 with DNaseI
File
Alignments (bam)
4DNFICZ34VRB
151.88m
7.493%
13.502%
16.64%
1.509%
0.132%
Experiment
4DNEXZ3C2HEZ
Bio Rep 2, Tec Rep 1
DNase Hi-C on HeLa-S3 with DNaseI
File
Alignments (bam)
4DNFI7SHTR48
177.88m
7.95%
12.74%
19.021%
1.213%
0.127%