ExperimentSetReplicate

ExperimentSet4DNESK95HVFB
released
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in situ Hi-C on CH12LX 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 
M. musculus
Sample Type 
immortalized cells
Sample 
CH12.LX
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

36 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESK95HVFB
Multiple Experiments
File
Contact List-combined (pairs)
4DNFID618BP5
770.65m
30.854%
48.017%
21.129%
Experiment
4DNEXOMVIZYT
Bio Rep 1, Tec Rep 1
in situ Hi-C on CH12.LX with MboI
File
Contact List-replicate (pairs)
4DNFIT3RD5VO
60.22m
27.58%
41.487%
30.933%
Experiment
4DNEX1DIDIDH
Bio Rep 1, Tec Rep 2
in situ Hi-C on CH12.LX with MboI
File
Contact List-replicate (pairs)
4DNFIYOUXDA5
36.03m
29.613%
41.363%
29.024%
Experiment
4DNEXK68QRAS
Bio Rep 1, Tec Rep 3
in situ Hi-C on CH12.LX with MboI
File
Contact List-replicate (pairs)
4DNFI5DDBY89
31.6m
28.518%
48.07%
23.412%
Experiment
4DNEX7B3Q5EF
Bio Rep 1, Tec Rep 4
in situ Hi-C on CH12.LX with MboI
File
Contact List-replicate (pairs)
4DNFIKP2V6HQ
47.96m
18.944%
58.791%
22.265%
Experiment
4DNEXKIC9U9H
Bio Rep 1, Tec Rep 5
in situ Hi-C on CH12.LX with MboI
File
Contact List-replicate (pairs)
4DNFI6ETC1JB
39.66m
35.976%
41.35%
22.674%
Experiment
4DNEXBT115HL
Bio Rep 1, Tec Rep 6
in situ Hi-C on CH12.LX with MboI
File
Contact List-replicate (pairs)
4DNFI155DWSK
18.78m
31.864%
46.402%
21.733%
Show 9 More
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESK95HVFB
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIJLJIRKT
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXOMVIZYT
Bio Rep 1, Tec Rep 1
in situ Hi-C on CH12.LX with MboI
File
Alignments (bam)
4DNFI8VDJC5E
112.81m
10.428%
26.454%
6.24%
3.494%
0.14%
Experiment
4DNEX1DIDIDH
Bio Rep 1, Tec Rep 2
in situ Hi-C on CH12.LX with MboI
File
Alignments (bam)
4DNFIWY1MKVZ
65.92m
9.974%
22.44%
8.713%
4.212%
0.136%
Experiment
4DNEXK68QRAS
Bio Rep 1, Tec Rep 3
in situ Hi-C on CH12.LX with MboI
File
Alignments (bam)
4DNFIVBQPCWK
45.59m
6.896%
16.196%
3.726%
3.887%
0.161%
Experiment
4DNEX7B3Q5EF
Bio Rep 1, Tec Rep 4
in situ Hi-C on CH12.LX with MboI
File
Alignments (bam)
4DNFILLWZ5YH
78.65m
17.996%
15.3%
2.347%
3.376%
0.152%
Experiment
4DNEXKIC9U9H
Bio Rep 1, Tec Rep 5
in situ Hi-C on CH12.LX with MboI
File
Alignments (bam)
4DNFI5CYWWLU
58.71m
8.585%
16.472%
2.638%
4.756%
0.174%
Experiment
4DNEXBT115HL
Bio Rep 1, Tec Rep 6
in situ Hi-C on CH12.LX with MboI
File
Alignments (bam)
4DNFINPTCW8V
28.38m
8.019%
15.378%
6.23%
4.227%
0.147%
Experiment
4DNEXUV8OU8N
Bio Rep 1, Tec Rep 7
in situ Hi-C on CH12.LX with MboI
File
Alignments (bam)
4DNFIKBP7SZZ
149.64m
18.232%
15.662%
12.034%
3.61%
0.084%
Show 8 More