ExperimentSetReplicate

ExperimentSet4DNESM8WR9QE
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HiChIP-seq on NIH-3T3 cells

   October 18th, 2022 at 3:59pm
Source Publication
TCF-1 promotes chromatin interactions across topologically associating domains in T cell progenitors.
Wang W, Chandra A, et al., Nature immunology 2022

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
immortalized cells
Sample 
NIH3T3
Experiment Type(s) 
HiChIP
Modification Type 
None
Treatment Type 
None
Assay Details 
Target: Smc1a (mouse)

5 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNESM8WR9QE
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI7VGSNIC
193.9m
54.385%
25.74%
19.875%
Experiment
4DNEXJWUPY83
Bio Rep 1, Tec Rep 1
HiChIP against Smc1a (mouse) on NIH3T3
File
Contact List-replicate (pairs)
4DNFITTD1CDS
193.9m
54.385%
25.74%
19.875%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESM8WR9QE
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI3KWX4LZ
1000; 2000; 5000; 10000; 25000; 50000; 100000; 250000; 500000; 1000000; 2500000; 5000000; 10000000
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXJWUPY83
Bio Rep 1, Tec Rep 1
HiChIP against Smc1a (mouse) on NIH3T3
File
Alignments (bam)
4DNFI4ETKPDS
524.44m
25.717%
24.612%
12.697%
0.0%
0.051%