ExperimentSetReplicate

ExperimentSet4DNES65I3RQG
released
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in situ Hi-C on human embryonic stem cells (H1) treated with flavopiridol - FL

   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
4DNES65I3RQG
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIQBIF4UH
424.04m
58.184%
23.821%
17.995%
Experiment
4DNEX72NZWWW
Bio Rep 1, Tec Rep 1
in situ Hi-C on H1-hESC (Tier 1) with Arima - A1, A2
File
Contact List-replicate (pairs)
4DNFIXPKYQY6
205.38m
58.543%
23.799%
17.657%
Experiment
4DNEX5FQ779D
Bio Rep 2, Tec Rep 1
in situ Hi-C on H1-hESC (Tier 1) with Arima - A1, A2
File
Contact List-replicate (pairs)
4DNFIBMEP9PS
218.66m
57.845%
23.841%
18.313%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES65I3RQG
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIF995818
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX72NZWWW
Bio Rep 1, Tec Rep 1
in situ Hi-C on H1-hESC (Tier 1) with Arima - A1, A2
File
Alignments (bam)
4DNFI9LGKARQ
292.01m
9.794%
9.702%
1.929%
8.241%
0.203%
Experiment
4DNEX5FQ779D
Bio Rep 2, Tec Rep 1
in situ Hi-C on H1-hESC (Tier 1) with Arima - A1, A2
File
Alignments (bam)
4DNFIZY1O3UH
312.49m
9.741%
9.994%
1.695%
8.599%
0.21%