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Title:          CEBPA phase separation links transcriptional activity and 3D chromatin hubs
Subject:        CellReports, 42 (2023) 112897. doi:10.1016/j.celrep.2023.112897
Author:         Marie Christou-Kent
Creator:        Elsevier
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      Title: CELREP112897_proof_v42i8.pdf
      Children: 
       Item: 
        Title: CEBPA phase separation links transcriptional activity and 3D chromatin hubs
        Destination: titlink1
        Children: 
         Item: 
          Title: Introduction
          Destination: flink1
         Item: 
          Title: Results
          Destination: flink2
          Children: 
           Item: 
            Title: CEBPA drives B to A compartment switching and long-range chromatin convergence during B cell to macrophage transdifferentiation
            Destination: slink3
           Item: 
            Title: CEBPA undergoes IDR-mediated phase separation in vitro
            Destination: slink4
           Item: 
            Title: trans and cis mutations of CEBPA impaired its phase separation capacity, transcriptional activity, and ability to rewire ch ...
            Destination: slink5
           Item: 
            Title: Native CEBPA drives the formation of nuclear foci
            Destination: slink6
         Item: 
          Title: Discussion
          Destination: flink7
          Children: 
           Item: 
            Title: Limitations of the study
            Destination: slink8
         Item: 
          Title: Supplemental information
          Destination: falink9
         Item: 
          Title: Acknowledgments
          Destination: acklink1
         Item: 
          Title: Author contributions
          Destination: acklink2
         Item: 
          Title: Declaration of interests
          Destination: acklink3
         Item: 
          Title: Acknowledgments
          Destination: acklink4
         Item: 
          Title: References
          Destination: blink1
         Item: 
          Title: STAR★Methods
          Destination: flink10
          Children: 
           Item: 
            Title: Key resources table
            Destination: slink11
           Item: 
            Title: Resource availability
            Destination: slink12
            Children: 
             Item: 
              Title: Lead contact
              Destination: tlink1
             Item: 
              Title: Materials availability
              Destination: tlink2
             Item: 
              Title: Data and code availability
              Destination: tlink3
           Item: 
            Title: Experimental model and study participant details
            Destination: slink13
            Children: 
             Item: 
              Title: Cell culture
              Destination: tlink4
             Item: 
              Title: Mice models
              Destination: tlink5
           Item: 
            Title: Method details
            Destination: slink14
            Children: 
             Item: 
              Title: Mouse embryo culture
              Destination: tlink6
             Item: 
              Title: Obtaining primary GMPs
              Destination: tlink7
             Item: 
              Title: Generation of doxycycline-inducible CEBPA overexpression lines in RCH cells
              Destination: tlink8
             Item: 
              Title: Generation of DNA constructs for transactivation assays
              Destination: tlink9
             Item: 
              Title: Transactivation assay
              Destination: tlink10
             Item: 
              Title: CRISPR-Cas9 genome editing
              Destination: tlink11
             Item: 
              Title: RNA extraction and quantitative RT-PCR
              Destination: tlink12
             Item: 
              Title: Live cell imaging
              Destination: tlink13
             Item: 
              Title: Fluorescence Recovery After Photo bleaching (FRAP)
              Destination: tlink14
             Item: 
              Title: Immunostaining of RCH-ACV, HepG2, mouse embryos, primary GMP cells
              Destination: tlink15
             Item: 
              Title: Airyscan imaging
              Destination: tlink16
             Item: 
              Title: Co-localization analysis
              Destination: tlink17
             Item: 
              Title: Cell preparation and Immunolabeling for Stochastic Optical Reconstruction Microscopy (STORM) imaging
              Destination: tlink18
             Item: 
              Title: STORM imaging
              Destination: tlink19
             Item: 
              Title: STORM imaging analysis
              Destination: tlink20
             Item: 
              Title: Identification of intrinsically disordered protein regions
              Destination: tlink21
             Item: 
              Title: Generation of DNA constructs for protein purification
              Destination: tlink22
             Item: 
              Title: Protein purification
              Destination: tlink23
             Item: 
              Title: In vitro droplet assays
              Destination: tlink24
             Item: 
              Title: Partitioning of CEBPA into MED1 IDR droplets
              Destination: tlink25
             Item: 
              Title: Protein sequences
              Destination: tlink26
              Children: 
               Item: 
                Title: CEBPA full length
                Destination: ftlink1
               Item: 
                Title: CEBPA-IDR wild type
                Destination: ftlink2
               Item: 
                Title: CEBPA-ΔIDR
                Destination: ftlink3
               Item: 
                Title: MED1-IDR
                Destination: ftlink4
               Item: 
                Title: PU.1
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               Item: 
                Title: PPARG
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               Item: 
                Title: NPM1
                Destination: ftlink7
             Item: 
              Title: In situ Hi-C library preparation and initial data processing
              Destination: tlink27
             Item: 
              Title: Identification of subnuclear compartments
              Destination: tlink28
             Item: 
              Title: Long-range interactions between CEBPA binding regions
              Destination: tlink29
             Item: 
              Title: Identification of differential interactions between non-induced and 24h CEBPA induced B cells
              Destination: tlink30
             Item: 
              Title: CEBPA interaction at the JUN locus
              Destination: tlink31
             Item: 
              Title: Gene expression analysis using RNA-seq data
              Destination: tlink32
             Item: 
              Title: ChIP-seq data analysis
              Destination: tlink33
           Item: 
            Title: Quantification and statistical analysis
            Destination: slink15
   Info: 
    Title: CEBPA phase separation links transcriptional activity and 3D chromatin hubs
    Author: Marie Christou-Kent
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    Creator: Elsevier
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   Type: CRC32
  Checksum: a4c38053f9cb0d55b5cdf42e8c5fad03
   Type: MD5
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   Type: SHA-256