ExperimentSetReplicate

ExperimentSet4DNES4D5MWEZ
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Replicate Set of sciHi-C on IMR90 cells - this Replicate Set is derived from experiments performed on pooled mixtures of IMR90 and GM12878 and IMR90 and HAP-1 cells and raw files will contain reads from multiple cell types. Barcode information needs to used to obtain line specific reads. Processed files for this set will be specific to IMR90 cells.

   October 11th, 2018 at 11:04pm
Source Publication
Capturing cell type-specific chromatin compartment patterns by applying topic modeling to single-cell Hi-C data.
Kim HJ, Yardimci GG, et al., PLoS computational biology 2020

Assay Description  

Experiment Set Properties  

Set Type 
Replicate
Organism 
H. sapiens
Sample Type 
primary cells
Sample 
IMR-90 (Tier 1)
Experiment Type(s) 
sci-Hi-C
Modification Type 
None
Treatment Type 
None
Assay Details 
Enzyme: DpnII

12 Raw Files

Biosample
Experiment
File
File Size
Sequence Length
Overall Quality
Total Sequences
Biosample
4DNBSXFI8X8X
Bio Replicate 1
Experiment
4DNEXUDB9U31
Tech Replicate 1
Pair 1
File
4DNFIY7AMPUJ
2.93 GB
250
  Pass
15.8m
File
4DNFI43WK5CT
3.16 GB
250
  Pass
15.8m
Pair 2
File
4DNFI2O9VJUN
2.92 GB
250
  Pass
15.94m
File
4DNFINVUCVXS
3.18 GB
250
  Pass
15.94m
Experiment
4DNEX344GLEL
Tech Replicate 2
Pair 1
File
4DNFIUF9HWHJ
10.71 GB
250
  Pass
57.16m
File
4DNFIOHYOKHI
11.64 GB
250
  Pass
57.16m
Pair 2
File
4DNFIO2AB2XM
11.61 GB
250
  Pass
62.51m
File
4DNFIIRK6HZQ
12.77 GB
250
  Pass
62.51m
Experiment
4DNEXJ9KRQWC
Tech Replicate 3
Pair 1
File
4DNFI5CI7FGZ
19.68 GB
250
  Pass
108.62m
File
4DNFI1EPBAMK
21.51 GB
250
  Pass
108.62m
Pair 2
File
4DNFI5RTSUJ2
14.85 GB
250
  Pass
82.83m
File
4DNFI3DXXQQ4
16.43 GB
250
  Pass
82.83m