Experiment Set

4DNESEOQUGG3
released
View JSON

Custom Set: Primary GM12878 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 
H. sapiens
Sample Type 
immortalized cells
Sample 
GM12878
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

36 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEX2G1IW8D
in situ Hi-C on GM12878 with MboI
File
4DNFISDRIE2G
alignments (bam)
41.72 GB
File
4DNFIANAU65D
contact list-replicate (pairs)
2.61 GB
Experiment
4DNEXC6G8UBB
in situ Hi-C on GM12878 with MboI
File
4DNFI4DSV6XH
alignments (bam)
11.46 GB
File
4DNFICBVHXUA
contact list-replicate (pairs)
884.87 MB
Experiment
4DNEXAP9J682
in situ Hi-C on GM12878 with MboI
File
4DNFITFQTO6U
alignments (bam)
16.93 GB
File
4DNFIWBALW9K
contact list-replicate (pairs)
1.13 GB
Experiment
4DNEXI9XV73W
in situ Hi-C on GM12878 with MboI
File
4DNFI3FKJQIB
alignments (bam)
28.76 GB
File
4DNFIG59MQN6
contact list-replicate (pairs)
1.83 GB
Experiment
4DNEX8IGST7K
in situ Hi-C on GM12878 with MboI
File
4DNFICEFA3ZN
alignments (bam)
39.05 GB
File
4DNFIF71VGQ3
contact list-replicate (pairs)
1.72 GB
Experiment
4DNEXYZQHUM3
in situ Hi-C on GM12878 with MboI
File
4DNFID733Z5U
alignments (bam)
33.46 GB
File
4DNFIDN4BQ8Z
contact list-replicate (pairs)
2.21 GB
Experiment
4DNEX1I1E292
in situ Hi-C on GM12878 with MboI
File
4DNFIQXA8KTV
alignments (bam)
43.23 GB
File
4DNFI34KOJMZ
contact list-replicate (pairs)
2.54 GB
Show 11 More

Quality Metrics

Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEX2G1IW8D
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFISDRIE2G
202.1m
5.875%
9.927%
9.078%
5.128%
0.255%
Experiment
4DNEXC6G8UBB
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFI4DSV6XH
55.81m
4.854%
10.643%
0.444%
3.843%
0.301%
Experiment
4DNEXAP9J682
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFITFQTO6U
84.91m
9.016%
12.577%
1.129%
8.52%
0.632%
Experiment
4DNEXI9XV73W
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFI3FKJQIB
137.17m
5.23%
12.619%
5.274%
4.528%
0.359%
Experiment
4DNEX8IGST7K
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFICEFA3ZN
186.17m
7.355%
11.323%
25.505%
6.489%
0.202%
Experiment
4DNEXYZQHUM3
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFID733Z5U
155.72m
5.147%
10.962%
2.678%
3.661%
0.315%
Experiment
4DNEX1I1E292
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFIQXA8KTV
194.22m
6.787%
12.374%
1.681%
9.863%
0.571%
Show 11 More
Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
Experiment
4DNEX2G1IW8D
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIANAU65D
141.45m
58.103%
24.733%
17.165%
Experiment
4DNEXC6G8UBB
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFICBVHXUA
44.77m
58.185%
17.631%
24.184%
Experiment
4DNEXAP9J682
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIWBALW9K
58.38m
49.203%
15.874%
34.923%
Experiment
4DNEXI9XV73W
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIG59MQN6
99.24m
51.721%
22.094%
26.186%
Experiment
4DNEX8IGST7K
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIF71VGQ3
91.84m
51.592%
15.87%
32.538%
Experiment
4DNEXYZQHUM3
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIDN4BQ8Z
120.76m
55.775%
22.246%
21.979%
Experiment
4DNEX1I1E292
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFI34KOJMZ
134.58m
45.802%
15.919%
38.279%
Show 11 More