ExperimentSetReplicate

ExperimentSet4DNESSL62JQK
released
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Small-scale in situ Hi-C on mouse ICM

   January 10th, 2020 at 3:45pm
Source Publication
Allelic reprogramming of 3D chromatin architecture during early mammalian development.
Du Z, Zheng H, et al., Nature 2017

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
M. musculus
Sample Type 
tissue
Sample 
inner cell mass
Experiment Type(s) 
in situ Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

12 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESSL62JQK
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIS2ZP8V2
202.63m
56.232%
23.592%
20.176%
Experiment
4DNEXKOV3QWG
Bio Rep 1, Tec Rep 1
in situ Hi-C on inner cell mass with MboI
File
Contact List-replicate (pairs)
4DNFIQ2CLZI3
28.39m
60.919%
26.243%
12.838%
Experiment
4DNEXUMDIVVM
Bio Rep 2, Tec Rep 1
in situ Hi-C on inner cell mass with MboI
File
Contact List-replicate (pairs)
4DNFIS6Q1NMW
71.08m
54.098%
26.499%
19.404%
Experiment
4DNEX8SIN2FI
Bio Rep 3, Tec Rep 1
in situ Hi-C on inner cell mass with MboI
File
Contact List-replicate (pairs)
4DNFIAYP2927
103.16m
56.413%
20.86%
22.727%
Experiment
For File
Failed Balancing
Details
From Multiple Experiments
4DNESSL62JQK
Multiple Experiments
File
Contact Matrix (mcool)
4DNFI28JH9NI
None
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXKOV3QWG
Bio Rep 1, Tec Rep 1
in situ Hi-C on inner cell mass with MboI
File
Alignments (bam)
4DNFITIVUDSB
264.97m
10.291%
10.367%
51.045%
17.581%
0.031%
Experiment
4DNEXUMDIVVM
Bio Rep 2, Tec Rep 1
in situ Hi-C on inner cell mass with MboI
File
Alignments (bam)
4DNFISBS6K1G
277.85m
10.911%
8.875%
30.318%
24.315%
0.098%
Experiment
4DNEX8SIN2FI
Bio Rep 3, Tec Rep 1
in situ Hi-C on inner cell mass with MboI
File
Alignments (bam)
4DNFIRK9XJFQ
234.5m
13.782%
8.362%
11.076%
22.787%
0.153%