ExperimentSetReplicate

ExperimentSet4DNESXZHIUAU
released

Small-scale in situ Hi-C on mouse late 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 
Late 2-cell stage embryo
Experiment Type(s) 
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: MboI

11 Processed Files

Quality Metrics

Experiment
For File
Filtered Reads
Cis reads (>20kb)
Short cis reads
Trans Reads
Report
Details
From Multiple Experiments
4DNESXZHIUAU
Multiple Experiments
File
Contact List-combined (pairs)
4DNFIFLS1BSB
274.69m
46.932%
28.169%
24.9%
Experiment
4DNEXOSG8OXE
Bio Rep 1, Tec Rep 1
in situ Hi-C on Late 2-cell stage embryo with MboI
File
Contact List-replicate (pairs)
4DNFIPLGJJ91
58.75m
49.639%
28.85%
21.511%
Experiment
4DNEXM5XEQNN
Bio Rep 2, Tec Rep 1
in situ Hi-C on Late 2-cell stage embryo with MboI
File
Contact List-replicate (pairs)
4DNFI1JB7E6J
51.32m
47.568%
27.592%
24.84%
Experiment
4DNEX4U1GKC1
Bio Rep 3, Tec Rep 1
in situ Hi-C on Late 2-cell stage embryo with MboI
File
Contact List-replicate (pairs)
4DNFIU7DL977
83.52m
40.783%
24.449%
34.768%
Experiment
4DNEXHFCMUAI
Bio Rep 4, Tec Rep 1
in situ Hi-C on Late 2-cell stage embryo with MboI
File
Contact List-replicate (pairs)
4DNFILEFNUZY
81.1m
50.9%
31.871%
17.229%
Experiment
For File
Total Reads
Unmapped Reads
Multimapped Reads
Duplicate Reads
Walks
Minor Contigs
Details
Experiment
4DNEXOSG8OXE
Bio Rep 1, Tec Rep 1
in situ Hi-C on Late 2-cell stage embryo with MboI
File
Alignments (bam)
4DNFIUYJ9D9E
302.47m
29.349%
8.053%
28.766%
14.409%
0.108%
Experiment
4DNEXM5XEQNN
Bio Rep 2, Tec Rep 1
in situ Hi-C on Late 2-cell stage embryo with MboI
File
Alignments (bam)
4DNFIPJAHZEC
224.13m
11.696%
8.715%
30.847%
25.845%
0.261%
Experiment
4DNEX4U1GKC1
Bio Rep 3, Tec Rep 1
in situ Hi-C on Late 2-cell stage embryo with MboI
File
Alignments (bam)
4DNFIJXGHTZO
327.49m
9.857%
9.308%
33.805%
21.527%
0.156%
Experiment
4DNEXHFCMUAI
Bio Rep 4, Tec Rep 1
in situ Hi-C on Late 2-cell stage embryo with MboI
File
Alignments (bam)
4DNFIUJUQLZR
239.75m
10.158%
9.602%
24.556%
21.859%
0.476%