ExperimentSetReplicate

ExperimentSet4DNESWPY49OL
released

Small-scale in situ Hi-C on mouse 8-cell embryos

   January 10th, 2020 at 3:45pm

Assay Description  


Note on Processed Files  


Some annotated bam and pairs files generated in this Experiment Set may contain distinct reads that share the same identifier. This was caused by merging fastq files with integer identifiers (eg. @1, @2) during processing.

Experiment Set Properties  


Set Type 
Replicate
Organism 
Biosource Type 
tissue
Biosource 
8-cell stage embryo
Experiment Type(s) 
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

9 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESWPY49OL
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIT3G7W7D
247.58m
56.77%
29.97%
13.26%
Experiment
4DNEXZRWL41A
Bio Rep 1, Tec Rep 1
in situ Hi-C on 8-cell stage embryo with MboI
File
Contact List-replicate (pairs)
4DNFIWHN45GW
67.7m
53.072%
33.996%
12.931%
Experiment
4DNEXK7BTAR5
Bio Rep 2, Tec Rep 1
in situ Hi-C on 8-cell stage embryo with MboI
File
Contact List-replicate (pairs)
4DNFIRHTWDI4
76.16m
56.683%
32.139%
11.178%
Experiment
4DNEXRRSO517
Bio Rep 3, Tec Rep 1
in situ Hi-C on 8-cell stage embryo with MboI
File
Contact List-replicate (pairs)
4DNFIK11JRAF
103.72m
59.247%
25.75%
15.003%
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXZRWL41A
Bio Rep 1, Tec Rep 1
in situ Hi-C on 8-cell stage embryo with MboI
File
Alignments (bam)
4DNFI1YPL8KE
308.29m
10.593%
9.365%
35.854%
22.228%
0.184%
Experiment
4DNEXK7BTAR5
Bio Rep 2, Tec Rep 1
in situ Hi-C on 8-cell stage embryo with MboI
File
Alignments (bam)
4DNFIQSNNXKL
325.97m
11.753%
9.793%
35.753%
19.338%
0.119%
Experiment
4DNEXRRSO517
Bio Rep 3, Tec Rep 1
in situ Hi-C on 8-cell stage embryo with MboI
File
Alignments (bam)
4DNFIT35A9NL
254.12m
9.725%
8.96%
17.281%
23.218%
0.162%