Experiment Set

4DNESU55MCVD
released
View JSON

Custom Set: CH12 mouse lymphoblast in situ Hi-C

   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 
Custom
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

30 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEXKIC9U9H
in situ Hi-C on CH12.LX with MboI
File
4DNFI5CYWWLU
alignments (bam)
10.42 GB
File
4DNFI6ETC1JB
contact list-replicate (pairs)
765.03 MB
Experiment
4DNEXK7426KI
in situ Hi-C on CH12.LX with MboI
File
4DNFINZGEMVB
alignments (bam)
7.91 GB
File
4DNFI9U9NJ89
contact list-replicate (pairs)
425.92 MB
Experiment
4DNEX1DIDIDH
in situ Hi-C on CH12.LX with MboI
File
4DNFIWY1MKVZ
alignments (bam)
15.33 GB
File
4DNFIYOUXDA5
contact list-replicate (pairs)
695.32 MB
Experiment
4DNEXK68QRAS
in situ Hi-C on CH12.LX with MboI
File
4DNFIVBQPCWK
alignments (bam)
7.88 GB
File
4DNFI5DDBY89
contact list-replicate (pairs)
604.7 MB
Experiment
4DNEXMSKPKNF
in situ Hi-C on CH12.LX with MboI
File
4DNFIDACYOPF
alignments (bam)
29.45 GB
File
4DNFITHXDLLC
contact list-replicate (pairs)
1.67 GB
Experiment
4DNEXBT115HL
in situ Hi-C on CH12.LX with MboI
File
4DNFINPTCW8V
alignments (bam)
4.97 GB
File
4DNFI155DWSK
contact list-replicate (pairs)
363.72 MB
Experiment
4DNEXGUB1KQH
in situ Hi-C on CH12.LX with MboI
File
4DNFIJVES558
alignments (bam)
29.55 GB
File
4DNFI54UUBPY
contact list-replicate (pairs)
1.61 GB
Show 8 More

Quality Metrics

Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXKIC9U9H
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
4DNEXK7426KI
in situ Hi-C on CH12.LX with MboI
File
Alignments (bam)
4DNFINZGEMVB
35.83m
9.807%
24.355%
1.082%
4.383%
0.215%
Experiment
4DNEX1DIDIDH
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
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
4DNEXMSKPKNF
in situ Hi-C on CH12.LX with MboI
File
Alignments (bam)
4DNFIDACYOPF
169.31m
17.555%
15.685%
9.428%
3.865%
0.088%
Experiment
4DNEXBT115HL
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
4DNEXGUB1KQH
in situ Hi-C on CH12.LX with MboI
File
Alignments (bam)
4DNFIJVES558
171.65m
18.085%
16.115%
11.052%
3.812%
0.084%
Show 8 More
Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
Experiment
4DNEXKIC9U9H
in situ Hi-C on CH12.LX with MboI
File
Contact List-replicate (pairs)
4DNFI6ETC1JB
39.66m
35.976%
41.35%
22.674%
Experiment
4DNEXK7426KI
in situ Hi-C on CH12.LX with MboI
File
Contact List-replicate (pairs)
4DNFI9U9NJ89
21.63m
28.437%
43.303%
28.26%
Experiment
4DNEX1DIDIDH
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
in situ Hi-C on CH12.LX with MboI
File
Contact List-replicate (pairs)
4DNFI5DDBY89
31.6m
28.518%
48.07%
23.412%
Experiment
4DNEXMSKPKNF
in situ Hi-C on CH12.LX with MboI
File
Contact List-replicate (pairs)
4DNFITHXDLLC
90.53m
36.006%
46.871%
17.123%
Experiment
4DNEXBT115HL
in situ Hi-C on CH12.LX with MboI
File
Contact List-replicate (pairs)
4DNFI155DWSK
18.78m
31.864%
46.402%
21.733%
Experiment
4DNEXGUB1KQH
in situ Hi-C on CH12.LX with MboI
File
Contact List-replicate (pairs)
4DNFI54UUBPY
87.43m
33.001%
50.067%
16.932%
Show 8 More