ExperimentSetReplicate

ExperimentSet4DNES4AABNEZ
released
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in situ Hi-C on human embryonic stem cells (H1) treated with RNase A - RNase

   July 1st, 2021 at 5:48pm
Source Publication
Genome-wide analysis of the interplay between chromatin-associated RNA and 3D genome organization in human cells.
Calandrelli R, Wen X, et al., Nature communications 2023

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
stem cells
Sample 
H1-hESC (Tier 1)
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
Chemical
Assay Details 
Enzyme: Arima - A1, A2

10 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNES4AABNEZ
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIKW1JXM7
475.34m
42.33%
22.558%
35.112%
Experiment
4DNEXW4D4EIM
Bio Rep 1, Tec Rep 1
in situ Hi-C on H1-hESC (Tier 1) with Arima - A1, A2
File
Contact List-replicate (pairs)
4DNFI7RFIOHO
239.25m
42.365%
22.503%
35.132%
Experiment
4DNEXCRO4CL4
Bio Rep 2, Tec Rep 1
in situ Hi-C on H1-hESC (Tier 1) with Arima - A1, A2
File
Contact List-replicate (pairs)
4DNFI8OUITYG
236.09m
42.295%
22.614%
35.091%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES4AABNEZ
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIFJH2524
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXW4D4EIM
Bio Rep 1, Tec Rep 1
in situ Hi-C on H1-hESC (Tier 1) with Arima - A1, A2
File
Alignments (bam)
4DNFIKMOG63A
328.19m
7.059%
11.08%
2.424%
6.536%
0.253%
Experiment
4DNEXCRO4CL4
Bio Rep 2, Tec Rep 1
in situ Hi-C on H1-hESC (Tier 1) with Arima - A1, A2
File
Alignments (bam)
4DNFIEZR2WNW
326.61m
7.233%
10.81%
2.994%
6.678%
0.235%