ExperimentSetReplicate

ExperimentSet4DNESICXDTH7
released

Small-scale in situ Hi-C on mouse early 2-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 
Early 2-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
4DNESICXDTH7
Multiple Experiments
File
Contact List-combined (pairs)
4DNFITOVAGGT
188.51m
48.395%
30.159%
21.447%
Experiment
4DNEXG3DOGTC
Bio Rep 1, Tec Rep 1
in situ Hi-C on Early 2-cell stage embryo with MboI
File
Contact List-replicate (pairs)
4DNFIPTCYXD6
57.86m
47.198%
30.477%
22.325%
Experiment
4DNEXV7Q3AOG
Bio Rep 2, Tec Rep 1
in situ Hi-C on Early 2-cell stage embryo with MboI
File
Contact List-replicate (pairs)
4DNFIJ5ALOZ3
76.78m
49.997%
30.225%
19.778%
Experiment
4DNEXWNFKU4Z
Bio Rep 3, Tec Rep 1
in situ Hi-C on Early 2-cell stage embryo with MboI
File
Contact List-replicate (pairs)
4DNFIPLW24ZA
53.87m
47.396%
29.722%
22.882%
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXG3DOGTC
Bio Rep 1, Tec Rep 1
in situ Hi-C on Early 2-cell stage embryo with MboI
File
Alignments (bam)
4DNFIPCDIDY7
387.44m
16.013%
9.696%
41.641%
17.716%
0.264%
Experiment
4DNEXV7Q3AOG
Bio Rep 2, Tec Rep 1
in situ Hi-C on Early 2-cell stage embryo with MboI
File
Alignments (bam)
4DNFIIX6N452
259.47m
11.047%
10.485%
30.678%
18.199%
0.258%
Experiment
4DNEXWNFKU4Z
Bio Rep 3, Tec Rep 1
in situ Hi-C on Early 2-cell stage embryo with MboI
File
Alignments (bam)
4DNFIU6AQLRV
232.83m
9.679%
9.037%
35.94%
22.209%
0.244%