ExperimentSetReplicate

ExperimentSet4DNES21D8SP8
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MicroC Libraries from H1ESC cells from 2 biological replicates, FA and DSG cross-linked, MNase digestion

   February 19th, 2019 at 3:46pm
Source Publication
Ultrastructural Details of Mammalian Chromosome Architecture.
Krietenstein N, Abraham S, et al., Molecular cell 2020

Note: This Experiment Set Supersedes - 4DNES21D8SP8  

This experiment set supercedes 4DNESRCFT5AI because new biological replicates were added.

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
stem cells
Sample 
H1-hESC (Tier 1)
Experiment Type(s) 
Micro-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MNase

24 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNES21D8SP8
Multiple Experiments
File
Contact List-combined (pairs)
4DNFI1O6IL1Q
3.22 billion
28.371%
58.135%
13.494%
Experiment
4DNEXQMEU2O4
Bio Rep 1, Tec Rep 1
Micro-C on H1-hESC (Tier 1) with MNase
File
Contact List-replicate (pairs)
4DNFI8GM4EL9
496.89m
23.981%
66.035%
9.984%
Experiment
4DNEX24VTARO
Bio Rep 1, Tec Rep 2
Micro-C on H1-hESC (Tier 1) with MNase
File
Contact List-replicate (pairs)
4DNFIMT4PHZ1
204m
24.243%
61.861%
13.896%
Experiment
4DNEX9JAVMKE
Bio Rep 1, Tec Rep 3
Micro-C on H1-hESC (Tier 1) with MNase
File
Contact List-replicate (pairs)
4DNFIBMG8YA3
298.36m
33.487%
49.581%
16.932%
Experiment
4DNEXWHALJ1K
Bio Rep 1, Tec Rep 4
Micro-C on H1-hESC (Tier 1) with MNase
File
Contact List-replicate (pairs)
4DNFING6ZFDF
471.27m
22.332%
59.216%
18.452%
Experiment
4DNEXQQM6EMK
Bio Rep 2, Tec Rep 1
Micro-C on H1-hESC (Tier 1) with MNase
File
Contact List-replicate (pairs)
4DNFIULY29IQ
226.41m
30.487%
52.665%
16.849%
Experiment
4DNEXACM6M51
Bio Rep 2, Tec Rep 2
Micro-C on H1-hESC (Tier 1) with MNase
File
Contact List-replicate (pairs)
4DNFI2YHYAJO
220.06m
31.012%
51.996%
16.993%
Experiment
4DNEX2WPDBN7
Bio Rep 2, Tec Rep 3
Micro-C on H1-hESC (Tier 1) with MNase
File
Contact List-replicate (pairs)
4DNFIXP9MVBU
434.65m
31.297%
57.424%
11.278%
Experiment
4DNEXCL5AQ32
Bio Rep 2, Tec Rep 4
Micro-C on H1-hESC (Tier 1) with MNase
File
Contact List-replicate (pairs)
4DNFI89L17XY
448.6m
30.638%
57.98%
11.382%
Experiment
4DNEXJPSM64Q
Bio Rep 2, Tec Rep 5
Micro-C on H1-hESC (Tier 1) with MNase
File
Contact List-replicate (pairs)
4DNFIIYUGYBU
420.25m
30.733%
58.912%
10.355%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNES21D8SP8
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI9GMP2J8
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXQMEU2O4
Bio Rep 1, Tec Rep 1
Micro-C on H1-hESC (Tier 1) with MNase
File
Alignments (bam)
4DNFID87ZI1F
791.95m
4.987%
19.072%
13.194%
0.004%
0.077%
Experiment
4DNEX24VTARO
Bio Rep 1, Tec Rep 2
Micro-C on H1-hESC (Tier 1) with MNase
File
Alignments (bam)
4DNFIW8TZAXU
746.64m
5.193%
19.915%
47.563%
0.006%
0.033%
Experiment
4DNEX9JAVMKE
Bio Rep 1, Tec Rep 3
Micro-C on H1-hESC (Tier 1) with MNase
File
Alignments (bam)
4DNFISY5EYYP
716.33m
4.364%
21.99%
31.986%
0.009%
0.054%
Experiment
4DNEXWHALJ1K
Bio Rep 1, Tec Rep 4
Micro-C on H1-hESC (Tier 1) with MNase
File
Alignments (bam)
4DNFI47X94O6
802.37m
4.594%
20.022%
16.645%
0.004%
0.074%
Experiment
4DNEXQQM6EMK
Bio Rep 2, Tec Rep 1
Micro-C on H1-hESC (Tier 1) with MNase
File
Alignments (bam)
4DNFIMOJMDMC
334.68m
6.751%
19.607%
5.988%
0.003%
0.078%
Experiment
4DNEXACM6M51
Bio Rep 2, Tec Rep 2
Micro-C on H1-hESC (Tier 1) with MNase
File
Alignments (bam)
4DNFI5MYJT3U
327.61m
5.187%
20.251%
7.388%
0.004%
0.079%
Experiment
4DNEX2WPDBN7
Bio Rep 2, Tec Rep 3
Micro-C on H1-hESC (Tier 1) with MNase
File
Alignments (bam)
4DNFI9IPV1P1
731.95m
3.432%
18.226%
18.955%
0.004%
0.056%
Experiment
4DNEXCL5AQ32
Bio Rep 2, Tec Rep 4
Micro-C on H1-hESC (Tier 1) with MNase
File
Alignments (bam)
4DNFI5PXT1KG
707.83m
3.329%
18.593%
14.697%
0.004%
0.056%
Experiment
4DNEXJPSM64Q
Bio Rep 2, Tec Rep 5
Micro-C on H1-hESC (Tier 1) with MNase
File
Alignments (bam)
4DNFI1L2ANL1
731.85m
3.479%
18.469%
20.624%
0.004%
0.049%