ExperimentSetReplicate

ExperimentSet4DNESTRKO6LB
released

Small-scale in situ Hi-C on mouse sperm cells

   January 10th, 2020 at 3:44pm

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 
primary cell
Biosource 
sperm
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
4DNESTRKO6LB
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIAS9CGMR
86.91m
24.886%
37.971%
37.143%
Experiment
4DNEXZK3P2RC
Bio Rep 1, Tec Rep 1
in situ Hi-C on sperm with MboI
File
Contact List-replicate (pairs)
4DNFI85GLH16
19.4m
24.861%
36.441%
38.698%
Experiment
4DNEX5M2F6X6
Bio Rep 2, Tec Rep 1
in situ Hi-C on sperm with MboI
File
Contact List-replicate (pairs)
4DNFIK41CGVD
27.6m
22.911%
40.504%
36.585%
Experiment
4DNEXI9UU2P4
Bio Rep 3, Tec Rep 1
in situ Hi-C on sperm with MboI
File
Contact List-replicate (pairs)
4DNFII1L7W8H
39.91m
26.264%
36.963%
36.773%
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXZK3P2RC
Bio Rep 1, Tec Rep 1
in situ Hi-C on sperm with MboI
File
Alignments (bam)
4DNFI4I3FLEY
91.34m
14.702%
11.87%
35.102%
17.085%
0.081%
Experiment
4DNEX5M2F6X6
Bio Rep 2, Tec Rep 1
in situ Hi-C on sperm with MboI
File
Alignments (bam)
4DNFI4VRK3N8
177.36m
13.197%
11.671%
41.881%
17.691%
0.055%
Experiment
4DNEXI9UU2P4
Bio Rep 3, Tec Rep 1
in situ Hi-C on sperm with MboI
File
Alignments (bam)
4DNFIMJ3H9EW
193.78m
10.762%
12.103%
37.712%
18.828%
0.07%