Information
Accession GMS-65-42 

URL copied to the clipboard

TitleHi-C on H1 cells - protocol variations
Submit date2025-01-21 18:20:08
Last update date2025-01-21 18:20:08
Contact GMSuite GENOMEMODALITY
gmsuite AT hgc.jp
The University of Tokyo
Sharing
Total file size46.33 GB
Keywords Hi-C  4DN  contact matrix 
 Study
Experiment type in situ Hi-C
Summary 4DNFI92GEPN1
Assay Details: DpnII
Dataset: Hi-C on H1 cells - protocol variations
Condition: Enzyme Dpn II - cells cultured following 4DN SOP
Notes: N/A
Biosource: H1-hESC (Tier 1)
File Download URL: https://data.4dnucleome.org/files-processed/4DNFI92GEPN1/@@download/4DNFI92GEPN1.hic

4DNFI3RIKRUJ
Assay Details: DpnII
Dataset: Hi-C on H1 cells - protocol variations
Condition: Enzyme Dpn II - cells cultured following 4DN SOP
Notes: N/A
Biosource: H1-hESC (Tier 1)
File Download URL: https://data.4dnucleome.org/files-processed/4DNFI3RIKRUJ/@@download/4DNFI3RIKRUJ.hic

4DNFI9NDGTUJ
Assay Details: DpnII
Dataset: Hi-C on H1 cells - protocol variations
Condition: Enzyme Dpn II - cells cultured following 4DN SOP
Notes: N/A
Biosource: H1-hESC (Tier 1)
File Download URL: https://data.4dnucleome.org/files-processed/4DNFI9NDGTUJ/@@download/4DNFI9NDGTUJ.hic

4DNFIQYQWPF5
Assay Details: DpnII
Dataset: Hi-C on H1 cells - protocol variations
Condition: Enzyme Dpn II - cells cultured following 4DN SOP
Notes: N/A
Biosource: H1-hESC (Tier 1)
File Download URL: https://data.4dnucleome.org/files-processed/4DNFIQYQWPF5/@@download/4DNFIQYQWPF5.hic

Citation(s) 4DNES2M5JIGV
 Experiment
OrganismHuman
Cell (Tissue) H1-hESC
Protocol 4DN_in_situ_Hi-C_protocol_20170729.pdf
Data processing HiC Processing Pipeline - v0.3.0
 Analysis
[564] 4DNFI3RIKRUJ: Enzyme Dpn II - cells cultured following 4DN SOP
 JuiceBox  Domain CallingBrowse  Browse (All)
Human (hg38); Hi-C

HiC

4DNFI3RIKRUJ.hic (10.96 GB)  
 mCool
 Cooler-Tree


PHi-C2 (polymer dynamics modeling)


failed 
[Domain] X:78130000-79440000 (53 bins,25Kb)

[489] 4DNFI92GEPN1: Enzyme Dpn II - cells cultured following 4DN SOP
 JuiceBox  Domain CallingBrowse
Human (hg38); Hi-C

HiC

4DNFI92GEPN1.hic (6.41 GB)  
 mCool
 Cooler-Tree


PHi-C2 (polymer dynamics modeling)






failed 
[Domain] 8:68540000-69625000 (44 bins,25Kb)
[Domain] 8:70725000-71815000 (44 bins,25Kb)
[Domain] 8:75290000-78430000 (126 bins,25Kb)
[Domain] 9:13020000-14475000 (59 bins,25Kb)
[Domain] 9:29800000-31830000 (82 bins,25Kb)
[Domain] 9:84375000-85455000 (44 bins,25Kb)
[Domain] 9:99160000-100245000 (44 bins,25Kb)
[Domain] 9:105830000-107085000 (51 bins,25Kb)
[Domain] 9:107405000-108790000 (56 bins,25Kb)
[Domain] X:14040000-15240000 (48 bins,25Kb)
[Domain] X:30960000-32300000 (54 bins,25Kb)
[Domain] X:32410000-34330000 (77 bins,25Kb)
[Domain] X:43930000-45100000 (47 bins,25Kb)
[Domain] X:45200000-46430000 (50 bins,25Kb)
[Domain] X:66750000-68140000 (56 bins,25Kb)
[Domain] X:74570000-76130000 (63 bins,25Kb)
[Domain] X:78130000-79440000 (53 bins,25Kb)
[Domain] X:83890000-85060000 (47 bins,25Kb)
[Domain] X:115940000-118270000 (94 bins,25Kb)

[565] 4DNFI9NDGTUJ: Enzyme Dpn II - cells cultured following 4DN SOP
 JuiceBox  Domain CallingBrowse
Human (hg38); Hi-C

HiC

4DNFI9NDGTUJ.hic (6.79 GB)  
 mCool
 Cooler-Tree


PHi-C2 (polymer dynamics modeling)


failed 
[Domain] X:99300000-100410000 (45 bins,25Kb)

[566] 4DNFIQYQWPF5: Enzyme Dpn II - cells cultured following 4DN SOP
 JuiceBox  Domain CallingBrowse
Human (hg38); Hi-C

HiC

4DNFIQYQWPF5.hic (22.16 GB)  
 mCool
 Cooler-Tree


PHi-C2 (polymer dynamics modeling)














































failed 
[Domain] X:25000000-38300000 (532 bins,25Kb)
[Domain] X:48500000-53100000 (184 bins,25Kb)
[Domain] X:70300000-72100000 (72 bins,25Kb)
[Domain] X:72700000-74300000 (64 bins,25Kb)
[Domain] X:111300000-119400000 (324 bins,25Kb)
[Domain] X:120300000-129400000 (364 bins,25Kb)
[Domain] X:138100000-149500000 (456 bins,25Kb)
[Domain] X:154880000-156000000 (45 bins,25Kb)

 Supplements
[564] 4DNFI3RIKRUJ.hic
 4DNFI3RIKRUJ: Enzyme Dpn II - cells cultured following 4DN SOP
 application/octet-stream 10.96 GB MD5: a383e02488a81d125292927141f258e6
[489] 4DNFI92GEPN1.hic
 4DNFI92GEPN1: Enzyme Dpn II - cells cultured following 4DN SOP
 application/octet-stream 6.41 GB MD5: 497315ae95f984b4b399e6c87bb97465
[565] 4DNFI9NDGTUJ.hic
 4DNFI9NDGTUJ: Enzyme Dpn II - cells cultured following 4DN SOP
 application/octet-stream 6.79 GB MD5: 3e8c9fff7cf12f29debf41c06715de77
[566] 4DNFIQYQWPF5.hic
 4DNFIQYQWPF5: Enzyme Dpn II - cells cultured following 4DN SOP
 application/octet-stream 22.16 GB MD5: 66971566f2c224f063eade64f348bb10