ExperimentSetReplicate

ExperimentSet4DNESI7DEJTM
released
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in situ Hi-C on K562 with MboI and bio-dATP (higher crosslinker concentration)

   April 9th, 2017 at 5:34pm
Source Publication
A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping.
Rao SS, Huntley MH, et al., Cell 2014

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
immortalized cells
Sample 
K562
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

18 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESI7DEJTM
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI2R1W3YW
907.14m
56.506%
20.93%
22.565%
Experiment
4DNEX8IKSYIC
Bio Rep 1, Tec Rep 1
in situ Hi-C on K562 with MboI
File
Contact List-replicate (pairs)
4DNFI9G9FRJJ
305.23m
55.971%
23.262%
20.768%
Experiment
4DNEX8PBXPIN
Bio Rep 1, Tec Rep 2
in situ Hi-C on K562 with MboI
File
Contact List-replicate (pairs)
4DNFI4DGNY7J
366.95m
58.33%
25.211%
16.46%
Experiment
4DNEXH2JC926
Bio Rep 2, Tec Rep 1
in situ Hi-C on K562 with MboI
File
Contact List-replicate (pairs)
4DNFIRHH2E7D
60.83m
54.452%
11.168%
34.379%
Experiment
4DNEX4QXTLZ9
Bio Rep 2, Tec Rep 2
in situ Hi-C on K562 with MboI
File
Contact List-replicate (pairs)
4DNFID8N3SCC
57.06m
53.774%
10.174%
36.052%
Experiment
4DNEXC7SDGS9
Bio Rep 2, Tec Rep 3
in situ Hi-C on K562 with MboI
File
Contact List-replicate (pairs)
4DNFIKFV5Y88
55.43m
54.726%
11.186%
34.088%
Experiment
4DNEX3CGGK34
Bio Rep 2, Tec Rep 4
in situ Hi-C on K562 with MboI
File
Contact List-replicate (pairs)
4DNFI7CIF2JL
61.64m
54.449%
12.254%
33.298%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESI7DEJTM
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI18UHVRO
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX8IKSYIC
Bio Rep 1, Tec Rep 1
in situ Hi-C on K562 with MboI
File
Alignments (bam)
4DNFIW21S5K4
456.76m
13.571%
11.361%
3.163%
5.081%
0.279%
Experiment
4DNEX8PBXPIN
Bio Rep 1, Tec Rep 2
in situ Hi-C on K562 with MboI
File
Alignments (bam)
4DNFIQXVPXVJ
591.85m
8.112%
11.021%
13.97%
4.897%
0.286%
Experiment
4DNEXH2JC926
Bio Rep 2, Tec Rep 1
in situ Hi-C on K562 with MboI
File
Alignments (bam)
4DNFIEAJBKUI
79.91m
6.366%
11.989%
0.441%
5.075%
0.692%
Experiment
4DNEX4QXTLZ9
Bio Rep 2, Tec Rep 2
in situ Hi-C on K562 with MboI
File
Alignments (bam)
4DNFI3GZ6U33
79.58m
5.943%
22.0%
0.353%
0.003%
0.512%
Experiment
4DNEXC7SDGS9
Bio Rep 2, Tec Rep 3
in situ Hi-C on K562 with MboI
File
Alignments (bam)
4DNFIKSP1NXL
77.35m
6.285%
21.835%
0.219%
0.002%
0.508%
Experiment
4DNEX3CGGK34
Bio Rep 2, Tec Rep 4
in situ Hi-C on K562 with MboI
File
Alignments (bam)
4DNFITGR57T2
80.78m
6.596%
11.984%
0.62%
4.488%
0.689%