ExperimentSetReplicate

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ExperimentSet4DNES8R5RDVD
released
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DNase Hi-C on RUES2 iPSC cells - day 0 undifferentiated

   September 19th, 2022 at 4:03pm
Source Publication
Dynamic chromatin organization and regulatory interactions in human endothelial cell differentiation.
Alavattam KG, Mitzelfelt KA, et al., Stem cell reports 2022

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
stem cells
Sample 
RUES2
Experiment Type(s) 
DNase Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: DNaseI

10 Processed Files

    Explore Data

Loading
Experiment
File
File Type
File Size
Notes
From Multiple Experiments
4DNES8R5RDVD
Multiple Experiments
File
4DNFI9G526S3
contact list-combined (pairs)
3.19 GB
-
File
4DNFIMMUA4VJ
contact matrix (hic)
1.59 GB
-
File
4DNFIOML8JZK
contact matrix (mcool)
995.82 MB
File
4DNFIGKQQYO6
boundaries (bed)
205.94 kB
-
File
4DNFI6LFESL2
insulation score-diamond (bw)
8.06 MB
-
File
4DNFI7QUHGB5
compartments (bw)
207.61 kB
-
Experiment
4DNEXGWVDZL5
Bio Rep 1, Tec Rep 1
DNase Hi-C on RUES2 with DNaseI
File
4DNFIR85MMBJ
alignments (bam)
21.33 GB
-
File
4DNFI7DIPZH6
contact list-replicate (pairs)
2.16 GB
-
Experiment
4DNEX561P4FA
Bio Rep 2, Tec Rep 1
DNase Hi-C on RUES2 with DNaseI
File
4DNFI2DMJY4R
alignments (bam)
13.18 GB
-
File
4DNFIZU6KA1G
contact list-replicate (pairs)
1.32 GB
-

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Details
From Multiple Experiments
4DNES8R5RDVD
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI9G526S3
176.51m
37.079%
45.605%
17.316%
Experiment
4DNEXGWVDZL5
Bio Rep 1, Tec Rep 1
DNase Hi-C on RUES2 with DNaseI
File
Contact List-replicate (pairs)
4DNFI7DIPZH6
109.55m
40.049%
43.038%
16.913%
Experiment
4DNEX561P4FA
Bio Rep 2, Tec Rep 1
DNase Hi-C on RUES2 with DNaseI
File
Contact List-replicate (pairs)
4DNFIZU6KA1G
66.97m
32.221%
49.804%
17.975%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES8R5RDVD
Multiple Experiments
File
Contact Matrix (mcool)
4DNFIOML8JZK
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXGWVDZL5
Bio Rep 1, Tec Rep 1
DNase Hi-C on RUES2 with DNaseI
File
Alignments (bam)
4DNFIR85MMBJ
163.28m
12.949%
12.213%
3.857%
3.892%
0.132%
Experiment
4DNEX561P4FA
Bio Rep 2, Tec Rep 1
DNase Hi-C on RUES2 with DNaseI
File
Alignments (bam)
4DNFI2DMJY4R
98.2m
13.19%
11.681%
2.233%
4.704%
0.123%