Experiment Set

4DNES17YC6VK
released
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Capture Hi-C on HAP-1 cells with inversion of region 1 B-forward CTCF site - All used the same clone. Most experiments used biotinylated-ATP but one used biotinylated-UTP as the tag.

   April 10th, 2017 at 1:11am
Source Publication
Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes.
Sanborn AL, Rao SS, et al., Proceedings of the National Academy of Sciences of the United States of America 2015

Experiment Set Properties  

Set Type 
Custom
Organism 
H. sapiens
Sample Type 
immortalized cells
Sample 
HAP-1
Experiment Type(s) 
Capture Hi-C
Modification Type 
Crispr
Treatment Type 
None
Assay Details 
Target: GRCh38:1:179830865-181830865 region, GRCh38:5:30999893-32999894 region, GRCh38:8:131987753-133987757 region

10 Processed Files

Experiment
File
File Type
File Size
Experiment
4DNEXK179IOV
Capture Hi-C on HAP-1 with MboI
File
4DNFIVSB1GQ3
alignments (bam)
186.35 MB
File
4DNFI91S1U76
contact list-replicate (pairs)
15.15 MB
Experiment
4DNEX7FI4QSK
Capture Hi-C on HAP-1 with MboI
File
4DNFIM7RKQFX
alignments (bam)
215.97 MB
File
4DNFIWJOITMI
contact list-replicate (pairs)
17.92 MB
Experiment
4DNEXU2KZRN9
Capture Hi-C on HAP-1 with MboI
File
4DNFIAJ685C3
alignments (bam)
309.5 MB
File
4DNFIV9QH4LQ
contact list-replicate (pairs)
25.34 MB
Experiment
4DNEX8KPXKZE
Capture Hi-C on HAP-1 with MboI
File
4DNFI979LF96
alignments (bam)
198.94 MB
File
4DNFIQ5RZSXU
contact list-replicate (pairs)
15.83 MB
Experiment
4DNEXY744GG9
Capture Hi-C on HAP-1 with MboI
File
4DNFI55LRFQB
alignments (bam)
464.59 MB
File
4DNFIUY2P7SH
contact list-replicate (pairs)
36.52 MB

Quality Metrics

Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXK179IOV
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIVSB1GQ3
1.09m
6.415%
18.452%
4.394%
4.669%
1.46%
Experiment
4DNEX7FI4QSK
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIM7RKQFX
1.31m
6.563%
17.816%
4.902%
4.854%
1.211%
Experiment
4DNEXU2KZRN9
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFIAJ685C3
1.8m
6.447%
17.662%
4.396%
4.695%
1.028%
Experiment
4DNEX8KPXKZE
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFI979LF96
1.16m
6.525%
19.022%
4.657%
4.988%
1.659%
Experiment
4DNEXY744GG9
Capture Hi-C on HAP-1 with MboI
File
Alignments (bam)
4DNFI55LRFQB
2.64m
6.61%
18.602%
4.654%
4.94%
1.053%
Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
Experiment
4DNEXK179IOV
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFI91S1U76
718.08k
58.635%
15.479%
25.885%
Experiment
4DNEX7FI4QSK
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIWJOITMI
860.95k
51.69%
19.345%
28.965%
Experiment
4DNEXU2KZRN9
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIV9QH4LQ
1.2m
58.589%
15.984%
25.427%
Experiment
4DNEX8KPXKZE
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIQ5RZSXU
750.3k
58.261%
15.544%
26.195%
Experiment
4DNEXY744GG9
Capture Hi-C on HAP-1 with MboI
File
Contact List-replicate (pairs)
4DNFIUY2P7SH
1.72m
55.064%
14.123%
30.813%