ExperimentSetReplicate

ExperimentSet4DNESEZ4EZZ9
released
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HiChIP-seq on TCF1 induced 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 
  1. Transient Transfection
  2. Chemical
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
4DNESEZ4EZZ9
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI6W2NCTT
279.77m
49.515%
33.588%
16.896%
Experiment
4DNEX8H8IWJN
Bio Rep 1, Tec Rep 1
HiChIP against Smc1a (mouse) on NIH3T3
File
Contact List-replicate (pairs)
4DNFIAQTF9Y4
279.77m
49.515%
33.588%
16.896%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESEZ4EZZ9
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIBKZ3QIK
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
4DNEX8H8IWJN
Bio Rep 1, Tec Rep 1
HiChIP against Smc1a (mouse) on NIH3T3
File
Alignments (bam)
4DNFIQBMHT9Y
552.1m
20.927%
22.611%
5.788%
0.0%
0.053%