16 fewer sets in 4DN-only Data.
Included Properties
Data Type
Project
Lab
Dataset
Organism
Sample Type
Sample Tier
Sample Category
Sample
Organ/System
Tissue Source
Publication
Modifications
Treatments
Assay Details
Center
Set Type
Total Reads
assay_subclass_short
Status
Commendations
Warnings
2 Common Properties
Experiment Category
Sequencing
Experiment Type
Hi-C
Title
Experiment Type
Biosample
Dataset
Condition
Assay Details
Lab
in situ Hi-C
46C with Sox1-GFP
Hi-C on mESC during neural differentiation
G0G1 neural progenitors cells (FACS sorted, Sox1-GFP+)
Enzyme
DpnII
in situ Hi-C
mESC line with Oct4-GFP
Hi-C on mESC during neural differentiation
G0G1 mESCs (FACS sorted, Oct4-GFP+)
Enzyme
DpnII
in situ Hi-C
GM12878
Hi-C on GM12878 cells - protocol variations
Preferred protocol - in situ Hi-C on GM12878 with MboI and bio-dATP
Enzyme
MboI
Dilution Hi-C
GM12878
Hi-C on GM12878 cells - protocol variations
dilution Hi-C on GM12878 with HindIII and bio-dCTP
Enzyme
HindIII
Micro-C
H1-hESC (Tier 1) differentiated to definitive endoderm
Micro-C on H1-DE cells - protocol variations
Formaldehyde+DSG, H1-DE (Tier 1)
Enzyme
MNase
in situ Hi-C
H1-hESC (Tier 1)
Hi-C on H1 cells - protocol variations
Formaldehyde+DSG, DpnII, H1-hESC (Tier 1)
Enzyme
DpnII
in situ Hi-C
HFFc6 (Tier 1)
Hi-C on HFF cells - protocol variations
Formaldehyde+DSG, DdeI and DpnII, HFFc6 (Tier 1)
Enzyme
DdeI and DpnII
Micro-C
JM8.N4 (Tier 2)
Micro-C on JM8.N4 Cells +/- transcription
Wild type, no treatment
Enzyme
MNase
in situ Hi-C
HFFc6 (Tier 1)
Hi-C on HFF cells - protocol variations
Enzyme DpnII - in situ Hi-C on HFFc6 (4DN Tier1 clone) with 4DN cell culture SOP.
Enzyme
DpnII
in situ Hi-C
HFFc6 (Tier 1)
Hi-C on HFF cells - protocol variations
Formaldehyde+DSG, DpnII, HFFc6 (Tier 1)
Enzyme
DpnII
in situ Hi-C
CyT49 differentiated to pancreatic endoderm
Hi-C on hESC differentiated to pancreatic endoderm
pancreatic endoderm
Enzyme
MboI
in situ Hi-C
CyT49 differentiated to definitive endoderm
Hi-C on hESC differentiated to pancreatic endoderm
definitive endoderm
Enzyme
MboI
in situ Hi-C
H1-hESC differentiated to definitive endoderm
Hi-C on H1-DE cells - protocol variations
Formaldehyde, DpnII
Enzyme
DpnII
in situ Hi-C
HCT116 with Crispr generated mClover and AID-tagged RAD21
Hi-C on RAD21-AID tagged HCT-116
no auxin treatment
Enzyme
MboI
in situ Hi-C
HFFc6 (Tier 1)
Hi-C on HFF cells - protocol variations
Formaldehyde+DSG, DdeI, HFFc6, (Tier 1)
Enzyme
DdeI
in situ Hi-C
HCT116 with Crispr generated mClover and AID-tagged RAD21
Hi-C on RAD21-AID tagged HCT-116
6h auxin treatment
Enzyme
MboI
in situ Hi-C
CyT49
Hi-C on hESC differentiated to pancreatic endoderm
undifferentiated
Enzyme
MboI
in situ Hi-C
H1-hESC (Tier 1)
Hi-C on H1 cells - protocol variations
Enzyme Dpn II - cells cultured following 4DN SOP
Enzyme
DpnII
in situ Hi-C
H9 with targeted integration of GFP-tagged MYL2 differentiated to cardiogenic mesoderm
Hi-C on H9 cells during cardiomyocyte differentiation
cardiac mesoderm
Enzyme
MboI
in situ Hi-C
CyT49 differentiated to endoderm of foregut
Hi-C on hESC differentiated to pancreatic endoderm
gut endoderm
Enzyme
MboI
in situ Hi-C
H9 with targeted integration of GFP-tagged MYL2 differentiated to cardiac muscle myoblast
Hi-C on H9 cells during cardiomyocyte differentiation
cardiac progenitors
Enzyme
MboI
in situ Hi-C
H9 with targeted integration of GFP-tagged MYL2 differentiated to primitive cardiac myocyte
Hi-C on H9 cells during cardiomyocyte differentiation
primitive cardiomyocytes
Enzyme
MboI
in situ Hi-C
H9 with targeted integration of GFP-tagged MYL2 differentiated to mesoderm
Hi-C on H9 cells during cardiomyocyte differentiation
mesoderm
Enzyme
MboI