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28 fewer sets in 4DN-only Data.

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  • ExperimentSetReplicate87
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  • Replicate87
    • Status
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    2 Common Properties
     Experiment Category
    Sequencing
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    Title
    Experiment Type
    Biosample
    Dataset
    Condition
    Assay Details
    Lab
    4DNES3JX38V5
    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
    Erez Lieberman Aiden, BCM
    4DNESNDJ9QVX
    Dilution Hi-C
    GM12878
    Hi-C on GM12878 cells - protocol variations
    dilution Hi-C on GM12878 with NcoI and bio-dCTP
    Enzyme
    NcoI
    Erez Lieberman Aiden, BCM
    4DNESNZZR2VD
    Dilution Hi-C
    GM12878
    Hi-C on GM12878 cells - protocol variations
    dilution Hi-C on GM12878 with HindIII and bio-dCTP
    Enzyme
    HindIII
    Erez Lieberman Aiden, BCM
    4DNESQR3D9XM
    ChIA-Drop
    GM12878
    ChIA-Drop in GM12878
    CTCF antibody
    Target
    CTCF protein; CTCF gene
    Yijun Ruan, JAX
    4DNES4269GKX
    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
    Erez Lieberman Aiden, BCM
    4DNESOXTI7LJ
    ChIA-Drop
    GM12878
    ChIA-Drop in GM12878
    RNAPII antibody
    Target
    RNA Pol II
    Yijun Ruan, JAX
    4DNESQWI9K2F
    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
    Erez Lieberman Aiden, BCM
    4DNESKYIL7K9
    ChIA-Drop
    GM12878
    ChIA-Drop in GM12878
    RAD21 antibody
    Target
    RAD21
    Yijun Ruan, JAX
    4DNESLQG7ZKJ
    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
    Erez Lieberman Aiden, BCM
    4DNESI1U7ZW9
    DNA SPRITE
    GM12878
    DNA SPRITE on GM12878
    -
    -
    Mitchell Guttman, CALTECH
    4DNES3RHDBBR
    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
    Erez Lieberman Aiden, BCM
    4DNESBJ1KYYH
    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
    Erez Lieberman Aiden, BCM
    4DNESCIHJOXA
    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
    Erez Lieberman Aiden, BCM
    4DNESLLTENG9
    Dilution Hi-C
    GM12878
    Hi-C on GM12878 cells - protocol variations
    Selvaraj et al Nature Biotech 2013
    Enzyme
    HindIII
    Bing Ren, UCSD
    4DNESLLA3R1V
    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
    Erez Lieberman Aiden, BCM
    4DNES7IB5LY9
    in situ ChIA-PET
    GM12878
    in situ ChIA-PET on GM12878
    CTCF
    Target
    CTCF protein
    Yijun Ruan, JAX
    4DNESGE77IUF
    ChIA-Drop
    GM12878
    ChIA-Drop in GM12878
    SMC1 antibody
    Target
    SMC1A protein
    Yijun Ruan, JAX
    4DNES7W1FL5I
    CUT&RUN
    GM12878 (Tier 1)
    H3K27me3 - GM12878
    Cell Signaling 9733S
    Target
    H3K27me3
    Steve Henikoff, FREDHUTCH
    4DNESZ25MOZV
    in situ ChIA-PET
    GM12878
    in situ ChIA-PET on GM12878
    RNA Pol II
    Target
    RNA Pol II
    Yijun Ruan, JAX
    4DNESJFTAURO
    in situ Hi-C
    GM12878
    Hi-C on GM12878 cells - protocol variations
    in situ Hi-C on GM12878 with MboI and bio-dCTP
    Enzyme
    MboI
    Erez Lieberman Aiden, BCM
    4DNESZ2PVZWR
    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)
    Enzyme
    MboI
    Erez Lieberman Aiden, BCM
    4DNESPXW8XHY
    in situ Hi-C
    GM12878
    Hi-C on GM12878 cells - protocol variations
    in situ Hi-C on GM12878 with MboI and bio-dATP (pellet and supernatant protocol)
    Enzyme
    MboI
    Erez Lieberman Aiden, BCM
    4DNESJZG6STU
    CUT&RUN
    GM12878 (Tier 1)
    Suz12 - GM12878
    ab12073
    Target
    SUZ12 protein
    Steve Henikoff, FREDHUTCH
    4DNESQS2J929
    CUT&RUN
    GM12878 (Tier 1)
    H3K4me2 - GM12878
    Upstate 07-030
    Target
    H3K4me2
    Steve Henikoff, FREDHUTCH
    4DNESLYCNMZP
    CUT&RUN
    GM12878 (Tier 1)
    H3K4me1 - GM12878
    ab8895
    Target
    H3K4me1
    Steve Henikoff, FREDHUTCH