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28 fewer sets in 4DN-only Data.

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2 Common Properties
 Experiment Category
Sequencing
 Modifications
No value
Title
Experiment Type
Biosample
Dataset
Condition
Assay Details
Lab
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 NcoI and bio-dCTP
Enzyme
NcoI
Dilution Hi-C
GM12878
Hi-C on GM12878 cells - protocol variations
dilution Hi-C on GM12878 with HindIII and bio-dCTP
Enzyme
HindIII
in situ Hi-C
GM12878
Hi-C on GM12878 cells - protocol variations
in situ Hi-C on GM12878 with MboI and bio-dATP (in agar plugs, w/out crosslinking)
Enzyme
MboI
in situ Hi-C
GM12878
Hi-C on GM12878 cells - protocol variations
in situ Hi-C on GM12878 with DpnII and bio-dATP
Enzyme
DpnII
DNA SPRITE
GM12878
DNA SPRITE on GM12878
-
-
ChIA-Drop
GM12878
ChIP-enriched ChIA-Drop on GM12878
-
Target
CTCF protein
in situ Hi-C
GM12878
Hi-C on GM12878 cells - protocol variations
in situ Hi-C on GM12878 with MboI and bio-dATP (Tethered HiC, high ligation volume)
Enzyme
MboI
in situ ChIA-PET
GM12878
in situ ChIA-PET on GM12878
RNA Pol II
Target
RNA Pol II
in situ ChIA-PET
GM12878
in situ ChIA-PET on GM12878
CTCF
Target
CTCF protein
Dilution Hi-C
GM12878
Hi-C on GM12878 cells - protocol variations
Selvaraj et al Nature Biotech 2013
Enzyme
HindIII
in situ Hi-C
GM12878
Hi-C on GM12878 cells - protocol variations
in situ Hi-C on GM12878 with MboI and bio-dATP (Tethered HiC, lower ligation volume)
Enzyme
MboI
in situ Hi-C
GM12878
Hi-C on GM12878 cells - protocol variations
in situ Hi-C on GM12878 with NcoI and bio-dCTP
Enzyme
NcoI
in situ Hi-C
GM12878
Hi-C on GM12878 cells - protocol variations
in situ Hi-C on GM12878 with MboI and bio-dCTP (Tethered HiC)
Enzyme
MboI
CUT&RUN
GM12878 (Tier 1)
H3K27me3 - GM12878
Cell Signaling 9733S
Target
H3K27me3
CUT&RUN
GM12878 (Tier 1)
H2A.Z - GM12878
Active Motif 39113
Target
H2A.Z protein
CUT&RUN
GM12878 (Tier 1)
Suz12 - GM12878
ab12073
Target
SUZ12 protein
CUT&RUN
GM12878 (Tier 1)
H3K4me2 - GM12878
Upstate 07-030
Target
H3K4me2
CUT&RUN
GM12878 (Tier 1)
H3K4me1 - GM12878
ab8895
Target
H3K4me1
ChIA-PET
GM12878
ChIA-PET in GM12878
RNA PolII
Target
RNA Pol II
ChIA-PET
GM12878
ChIA-PET in GM12878
CTCF
Target
CTCF protein
in situ Hi-C
GM12878
Hi-C on GM12878 cells - protocol variations
in situ Hi-C on GM12878 with MboI and bio-dATP (in agar plugs)
Enzyme
MboI
CUT&RUN
GM12878 (Tier 1)
CTCF - GM12878
Millipore 07-729
Target
CTCF protein
CUT&RUN
GM12878 (Tier 1)
NPAT - GM12878
PA5-66839
Target
NPAT protein
CUT&RUN
GM12878 (Tier 1)
H3K27ac - GM12878
Millipore MABE647
Target
H3K27ac