ExperimentSetReplicate

ExperimentSet4DNESDEK4IH8
released
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in situ Hi-C on KBM7 with MboI and bio-dATP

   April 9th, 2017 at 5:35pm
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 
KBM-7
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

16 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESDEK4IH8
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIZ9DS7VN
894.41m
39.164%
27.136%
33.7%
Experiment
4DNEXNZLASYA
Bio Rep 1, Tec Rep 1
in situ Hi-C on KBM-7 with MboI
File
Contact List-replicate (pairs)
4DNFI36TIXEX
103.21m
46.293%
15.167%
38.539%
Experiment
4DNEX3GDLGVQ
Bio Rep 2, Tec Rep 1
in situ Hi-C on KBM-7 with MboI
File
Contact List-replicate (pairs)
4DNFI6GY4932
245.38m
37.632%
30.256%
32.112%
Experiment
4DNEXIT922RC
Bio Rep 2, Tec Rep 2
in situ Hi-C on KBM-7 with MboI
File
Contact List-replicate (pairs)
4DNFI1RTJOBJ
64.87m
36.811%
29.184%
34.004%
Experiment
4DNEXS6CA395
Bio Rep 2, Tec Rep 3
in situ Hi-C on KBM-7 with MboI
File
Contact List-replicate (pairs)
4DNFIY6348QN
209.68m
35.858%
31.485%
32.658%
Experiment
4DNEXQAKFXNX
Bio Rep 2, Tec Rep 4
in situ Hi-C on KBM-7 with MboI
File
Contact List-replicate (pairs)
4DNFIG4GG38V
271.27m
40.955%
25.017%
34.028%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESDEK4IH8
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI5IHU27G
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXNZLASYA
Bio Rep 1, Tec Rep 1
in situ Hi-C on KBM-7 with MboI
File
Alignments (bam)
4DNFINQ2IWK1
136.88m
5.888%
12.537%
0.901%
5.276%
0.323%
Experiment
4DNEX3GDLGVQ
Bio Rep 2, Tec Rep 1
in situ Hi-C on KBM-7 with MboI
File
Alignments (bam)
4DNFIJ3NI7KN
332.28m
5.592%
12.133%
4.093%
4.335%
0.295%
Experiment
4DNEXIT922RC
Bio Rep 2, Tec Rep 2
in situ Hi-C on KBM-7 with MboI
File
Alignments (bam)
4DNFIZAALR88
95.82m
13.365%
12.313%
1.127%
5.496%
0.297%
Experiment
4DNEXS6CA395
Bio Rep 2, Tec Rep 3
in situ Hi-C on KBM-7 with MboI
File
Alignments (bam)
4DNFIQVO3TDM
294.49m
8.825%
12.346%
3.455%
4.172%
0.275%
Experiment
4DNEXQAKFXNX
Bio Rep 2, Tec Rep 4
in situ Hi-C on KBM-7 with MboI
File
Alignments (bam)
4DNFIN9XU63O
388.47m
9.201%
12.382%
2.993%
5.593%
0.294%