Experiment Set

4DNESCDNTOQR
released
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Custom Set: Replicate 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

22 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEXLEMVRUN
in situ Hi-C on GM12878 with MboI
File
4DNFI5H6HHYH
alignments (bam)
69.87 GB
File
4DNFIFQL2K6N
contact list-replicate (pairs)
4.65 GB
Experiment
4DNEXNEX9DN1
in situ Hi-C on GM12878 with MboI
File
4DNFIGMREQ23
alignments (bam)
79.19 GB
File
4DNFI24MDDBZ
contact list-replicate (pairs)
4.77 GB
Experiment
4DNEX2VLB31V
in situ Hi-C on GM12878 with MboI
File
4DNFIHU72Z59
alignments (bam)
80.28 GB
File
4DNFIMC4GWKO
contact list-replicate (pairs)
5.53 GB
Experiment
4DNEXT7WEQ49
in situ Hi-C on GM12878 with MboI
File
4DNFIZO3GZRX
alignments (bam)
63.33 GB
File
4DNFI2I5JC3L
contact list-replicate (pairs)
4.01 GB
Experiment
4DNEXEJM8STO
in situ Hi-C on GM12878 with MboI
File
4DNFIYMCY5Q5
alignments (bam)
77.87 GB
File
4DNFI1CMC4NQ
contact list-replicate (pairs)
5.21 GB
Experiment
4DNEXONPRHBY
in situ Hi-C on GM12878 with MboI
File
4DNFIWJSCWWL
alignments (bam)
24.37 GB
File
4DNFIHW7O3BR
contact list-replicate (pairs)
1.59 GB
Experiment
4DNEXWOIPF4F
in situ Hi-C on GM12878 with MboI
File
4DNFIWPT5P55
alignments (bam)
75.19 GB
File
4DNFIROARX7U
contact list-replicate (pairs)
5.03 GB
Experiment
4DNEXQLJSIIN
in situ Hi-C on GM12878 with MboI
File
4DNFIY9YBG6I
alignments (bam)
12.67 GB
File
4DNFI7ICGXY9
contact list-replicate (pairs)
1.07 GB
Experiment
4DNEX3UQJRK9
in situ Hi-C on GM12878 with MboI
File
4DNFIJJP9UI2
alignments (bam)
74.09 GB
File
4DNFIATMYDMG
contact list-replicate (pairs)
4.51 GB
Experiment
4DNEXS8V14UB
in situ Hi-C on GM12878 with MboI
File
4DNFI7PCCH82
alignments (bam)
27.8 GB
File
4DNFIXR9BRGT
contact list-replicate (pairs)
2.33 GB
Experiment
4DNEX61JT6V1
in situ Hi-C on GM12878 with MboI
File
4DNFI5KXEMS5
alignments (bam)
39.48 GB
File
4DNFIIT7LQ6M
contact list-replicate (pairs)
2.48 GB
Show 4 More

Quality Metrics

Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXLEMVRUN
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFI5H6HHYH
328.2m
5.287%
11.285%
1.588%
5.432%
0.359%
Experiment
4DNEXNEX9DN1
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFIGMREQ23
348.39m
7.941%
11.993%
2.276%
4.853%
0.303%
Experiment
4DNEX2VLB31V
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFIHU72Z59
389.24m
4.479%
11.365%
3.169%
3.806%
0.279%
Experiment
4DNEXT7WEQ49
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFIZO3GZRX
314.31m
4.754%
10.346%
11.764%
4.299%
0.216%
Experiment
4DNEXEJM8STO
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFIYMCY5Q5
356.96m
5.088%
11.659%
1.071%
4.558%
0.345%
Experiment
4DNEXONPRHBY
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFIWJSCWWL
111.66m
5.568%
12.122%
0.813%
4.821%
0.322%
Experiment
4DNEXWOIPF4F
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFIWPT5P55
347.96m
5.032%
11.671%
1.593%
4.54%
0.357%
Experiment
4DNEXQLJSIIN
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFIY9YBG6I
74.17m
8.131%
11.574%
1.285%
4.107%
0.276%
Experiment
4DNEX3UQJRK9
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFIJJP9UI2
322.2m
7.717%
11.358%
1.34%
4.933%
0.299%
Experiment
4DNEXS8V14UB
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFI7PCCH82
165.95m
7.775%
12.754%
1.388%
4.773%
0.531%
Experiment
4DNEX61JT6V1
in situ Hi-C on GM12878 with MboI
File
Alignments (bam)
4DNFI5KXEMS5
178.3m
7.108%
10.807%
0.927%
5.143%
0.244%
Show 4 More
Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
Experiment
4DNEXLEMVRUN
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIFQL2K6N
250.77m
54.128%
21.784%
24.088%
Experiment
4DNEXNEX9DN1
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFI24MDDBZ
254.1m
50.075%
29.744%
20.181%
Experiment
4DNEX2VLB31V
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIMC4GWKO
300.42m
48.422%
29.529%
22.049%
Experiment
4DNEXT7WEQ49
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFI2I5JC3L
216.36m
59.393%
18.54%
22.068%
Experiment
4DNEXEJM8STO
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFI1CMC4NQ
277.09m
52.261%
16.32%
31.419%
Experiment
4DNEXONPRHBY
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIHW7O3BR
85.61m
50.869%
25.079%
24.052%
Experiment
4DNEXWOIPF4F
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIROARX7U
268.5m
52.331%
17.125%
30.545%
Experiment
4DNEXQLJSIIN
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFI7ICGXY9
55.55m
56.006%
17.594%
26.4%
Experiment
4DNEX3UQJRK9
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIATMYDMG
240.53m
51.818%
28.971%
19.211%
Experiment
4DNEXS8V14UB
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIXR9BRGT
121.66m
51.407%
16.212%
32.381%
Experiment
4DNEX61JT6V1
in situ Hi-C on GM12878 with MboI
File
Contact List-replicate (pairs)
4DNFIIT7LQ6M
135.54m
53.26%
25.136%
21.605%
Show 4 More