DOI: 10.1371/journal.pone.0001661. Maintenance of Long-Range DNA Interactions after Inhibition of Ongoing RNA Polymerase II Transcription

Maintenance of Long-Range DNA Interactions after Inhibition of Ongoing RNA Polymerase II Transcription

10.1371/journal.pone.0001661

Crossref journal-article

Public Library of Science (PLoS)

PLoS ONE (340)

Bibliography

Palstra, R.-J., Simonis, M., Klous, P., Brasset, E., Eijkelkamp, B., & de Laat, W. (2008). Maintenance of Long-Range DNA Interactions after Inhibition of Ongoing RNA Polymerase II Transcription. PLoS ONE, 3(2), e1661.

Authors 6

Robert-Jan Palstra (first)
Marieke Simonis (additional)
Petra Klous (additional)
Emilie Brasset (additional)
Bart Eijkelkamp (additional)
Wouter de Laat (additional)

References 51 Referenced 108

10.1038/nrg2041 / Nat Rev Genet / Dynamic genome architecture in the nuclear space: regulation of gene expression in three dimensions. by C Lanctot (2007)
10.1016/j.cell.2007.01.028 / Cell / Beyond the sequence: cellular organization of genome function. by T Misteli (2007)
10.1038/ng1051 / Nat Genet / Long-range chromatin regulatory interactions in vivo. by D Carter (2002)
10.1016/S1097-2765(02)00781-5 / Mol Cell / Looping and interaction between hypersensitive sites in the active beta-globin locus. by B Tolhuis (2002)
10.1038/ng1244 / Nat Genet / The beta-globin nuclear compartment in development and erythroid differentiation. by RJ Palstra (2003)
10.1101/gad.317004 / Genes Dev / The active spatial organization of the beta-globin locus requires the transcription factor EKLF. by R Drissen (2004)
10.1016/j.molcel.2004.12.028 / Mol Cell / Proximity among distant regulatory elements at the beta-globin locus requires GATA-1 and FOG-1. by CR Vakoc (2005)
10.1101/gad.399506 / Genes Dev / CTCF mediates long-range chromatin looping and local histone modification in the beta-globin locus. by E Splinter (2006)
10.1038/ni1115 / Nat Immunol / Long-range intrachromosomal interactions in the T helper type 2 cytokine locus. by CG Spilianakis (2004)
10.1038/ng1402 / Nat Genet / Interaction between differentially methylated regions partitions the imprinted genes Igf2 and H19 into parent-specific chromatin loops. by A Murrell (2004)
10.1101/gad.292104 / Genes Dev / Chromatin decondensation and nuclear reorganization of the HoxB locus upon induction of transcription. by S Chambeyron (2004)
10.1242/jcs.113.9.1565 / J Cell Sci / Large-scale chromatin organization of the major histocompatibility complex and other regions of human chromosome 6 and its response to interferon in interphase nuclei. by EV Volpi (2000)
10.1038/nrg1673 / Nat Rev Genet / Replication and transcription: shaping the landscape of the genome. by L Chakalova (2005)
10.1371/journal.pbio.0050192 / PLoS Biol / Myc dynamically and preferentially relocates to a transcription factory occupied by Igh. by CS Osborne (2007)
10.1038/ng1896 / Nat Genet / Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C). by M Simonis (2006)
10.1038/ng1102-347 / Nat Genet / Predicting three-dimensional genome structure from transcriptional activity. by PR Cook (2002)
10.1242/jcs.00819 / J Cell Sci / Nongenic transcription, gene regulation and action at a distance. by PR Cook (2003)
10.1016/j.tig.2007.01.007 / Trends Genet / What are the molecular ties that maintain genomic loops? by D Marenduzzo (2007)
10.1529/biophysj.105.077685 / Biophys J / Entropy-driven genome organization. by D Marenduzzo (2006)
10.1042/BST0341133 / Biochem Soc Trans / Transcription factories: structures conserved during differentiation and evolution. by I Faro-Trindade (2006)
10.1091/mbc.E05-08-0726 / Mol Biol Cell / Splicing speckles are not reservoirs of RNA polymerase II, but contain an inactive form, phosphorylated on serine2 residues of the C-terminal domain. by SQ Xie (2006)
10.1371/journal.pbio.0040138 / PLoS Biol / Intermingling of chromosome territories in interphase suggests role in translocations and transcription-dependent associations. by MR Branco (2006)
10.1016/S0021-9258(18)94169-4 / J Biol Chem / 5,6-Dichloro-1-beta-D-ribofuranosylbenzimidazole inhibits transcription elongation by RNA polymerase II in vitro. by LA Chodosh (1989)
10.1093/emboj/17.20.6020 / Embo J / Chromatin interaction mechanism of transcriptional control in vivo. by J Gribnau (1998)
10.1101/gad.13.1.112 / Genes Dev / Mechanisms of developmental control of transcription in the murine alpha- and beta-globin loci. by T Trimborn (1999)
10.1074/jbc.M402163200 / J Biol Chem / Alpha-amanitin blocks translocation by human RNA polymerase II. by XQ Gong (2004)
10.1073/pnas.251664698 / Proc Natl Acad Sci U S A / Structural basis of transcription: alpha-amanitin-RNA polymerase II cocrystal at 2.8 A resolution. by DA Bushnell (2002)
10.1093/nar/24.15.2924 / Nucleic Acids Res / In vivo degradation of RNA polymerase II largest subunit triggered by alpha-amanitin. by VT Nguyen (1996)
10.1038/nprot.2007.243 / Nat Protoc / Quantitative analysis of chromosome conformation capture assays (3C-qPCR). by H Hagege (2007)
10.1182/blood-2006-04-014431 / Blood / Flanking HS-62.5 and 3′HS1, and regions upstream of the LCR are not required for {beta}-globin transcription. by MA Bender (2006)
10.1083/jcb.200507073 / J Cell Biol / Coregulated human globin genes are frequently in spatial proximity when active. by JM Brown (2006)
{'key': 'ref32', 'article-title': 'Transcription and chromatin organization of a housekeeping gene cluster containing an integrated beta-globin Locus Control Region.', 'author': 'D Noordermeer', 'year': '2008', 'journal-title': 'PLoS Genet In Press'} / PLoS Genet In Press / Transcription and chromatin organization of a housekeeping gene cluster containing an integrated beta-globin Locus Control Region. by D Noordermeer (2008)
10.1083/jcb.200603083 / J Cell Biol / Folding and organization of a contiguous chromosome region according to the gene distribution pattern in primary genomic sequence. by LS Shopland (2006)
10.1074/jbc.M701159200 / J Biol Chem / Beta-globin active chromatin Hub formation in differentiating erythroid cells and in p45 NF-E2 knock-out mice. by J Kooren (2007)
10.1074/jbc.274.38.26850 / J Biol Chem / Requirement of an E1A-sensitive coactivator for long-range transactivation by the beta-globin locus control region. by EC Forsberg (1999)
10.1101/gr.5533506 / Genome Res / FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) isolates active regulatory elements from human chromatin. by PG Giresi (2007)
10.1371/journal.pgen.0020158 / PLoS Genet / Cell cycle-specified fluctuation of nucleosome occupancy at gene promoters. by GJ Hogan (2006)
10.1242/jcs.108.9.2927 / J Cell Sci / A chromomeric model for nuclear and chromosome structure. by PR Cook (1995)
10.1126/science.284.5421.1790 / Science / The organization of replication and transcription. by PR Cook (1999)
10.1083/jcb.200207115 / J Cell Biol / Gene density and transcription influence the localization of chromatin outside of chromosome territories detectable by FISH. by NL Mahy (2002)
10.1083/jcb.200404107 / J Cell Biol / Transcription-dependent spatial arrangements of CFTR and adjacent genes in human cell nuclei. by D Zink (2004)
10.1083/jcb.129.2.287 / J Cell Biol / Transcription-dependent redistribution of the large subunit of RNA polymerase II to discrete nuclear domains. by DB Bregman (1995)
10.1083/jcb.200206019 / J Cell Biol / The transcription cycle of RNA polymerase II in living cells. by H Kimura (2002)
10.1093/hmg/ddi104 / Hum Mol Genet 14 Spec / Remote control of gene transcription. by AG West (2005)
10.1371/journal.pone.0000630 / PLoS ONE / Intergenic transcription, cell-cycle and the developmentally regulated epigenetic profile of the human beta-globin locus. by J Miles (2007)
10.1038/377209a0 / Nature / Transcription complex stability and chromatin dynamics in vivo. by M Wijgerde (1995)
10.1101/gad.14.8.940 / Genes Dev / Nuclear localization and histone acetylation: a pathway for chromatin opening and transcriptional activation of the human beta-globin locus. by D Schubeler (2000)
10.1007/s10577-005-0845-4 / Chromosome Res / The replication timing of CFTR and adjacent genes. by A Englmann (2005)
10.1016/j.gde.2007.07.009 / Curr Opin Genet Dev / Inter-chromosomal gene regulation in the mammalian cell nucleus. by W de Laat (2007)
10.1083/jcb.200108110 / J Cell Biol / The concept of self-organization in cellular architecture. by T Misteli (2001)
10.1006/meth.2001.1220 / Methods / Fluorescence in situ hybridization analysis of transcript dynamics in cells. by MP van de Corput (2001)

Dates

Type	When
Created	17 years, 6 months ago (Feb. 19, 2008, 10:04 p.m.)
Deposited	2 years, 3 months ago (May 16, 2023, 11:13 a.m.)
Indexed	1 month, 2 weeks ago (July 16, 2025, 8:35 a.m.)
Issued	17 years, 6 months ago (Feb. 20, 2008)
Published	17 years, 6 months ago (Feb. 20, 2008)
Published Online	17 years, 6 months ago (Feb. 20, 2008)

Funders 0

None

BibTeX

@article{Palstra_2008, title={Maintenance of Long-Range DNA Interactions after Inhibition of Ongoing RNA Polymerase II Transcription}, volume={3}, ISSN={1932-6203}, url={http://dx.doi.org/10.1371/journal.pone.0001661}, DOI={10.1371/journal.pone.0001661}, number={2}, journal={PLoS ONE}, publisher={Public Library of Science (PLoS)}, author={Palstra, Robert-Jan and Simonis, Marieke and Klous, Petra and Brasset, Emilie and Eijkelkamp, Bart and de Laat, Wouter}, editor={Tora, Laszlo}, year={2008}, month=feb, pages={e1661} }

JSON

{
  "indexed": {
    "date-parts": [
      [
        2025,
        7,
        16
      ]
    ],
    "date-time": "2025-07-16T12:35:26Z",
    "timestamp": 1752669326651
  },
  "reference-count": 51,
  "publisher": "Public Library of Science (PLoS)",
  "issue": "2",
  "license": [
    {
      "start": {
        "date-parts": [
          [
            2008,
            2,
            20
          ]
        ],
        "date-time": "2008-02-20T00:00:00Z",
        "timestamp": 1203465600000
      },
      "content-version": "unspecified",
      "delay-in-days": 0,
      "URL": "http://creativecommons.org/licenses/by/4.0/"
    }
  ],
  "content-domain": {
    "domain": [
      "www.plosone.org"
    ],
    "crossmark-restriction": false
  },
  "DOI": "10.1371/journal.pone.0001661",
  "type": "journal-article",
  "created": {
    "date-parts": [
      [
        2008,
        2,
        20
      ]
    ],
    "date-time": "2008-02-20T03:04:42Z",
    "timestamp": 1203476682000
  },
  "page": "e1661",
  "update-policy": "http://dx.doi.org/10.1371/journal.pone.corrections_policy",
  "source": "Crossref",
  "is-referenced-by-count": 108,
  "title": "Maintenance of Long-Range DNA Interactions after Inhibition of Ongoing RNA Polymerase II Transcription",
  "prefix": "10.1371",
  "volume": "3",
  "author": [
    {
      "given": "Robert-Jan",
      "family": "Palstra",
      "sequence": "first",
      "affiliation": []
    },
    {
      "given": "Marieke",
      "family": "Simonis",
      "sequence": "additional",
      "affiliation": []
    },
    {
      "given": "Petra",
      "family": "Klous",
      "sequence": "additional",
      "affiliation": []
    },
    {
      "given": "Emilie",
      "family": "Brasset",
      "sequence": "additional",
      "affiliation": []
    },
    {
      "given": "Bart",
      "family": "Eijkelkamp",
      "sequence": "additional",
      "affiliation": []
    },
    {
      "given": "Wouter",
      "family": "de Laat",
      "sequence": "additional",
      "affiliation": []
    }
  ],
  "member": "340",
  "published-online": {
    "date-parts": [
      [
        2008,
        2,
        20
      ]
    ]
  },
  "reference": [
    {
      "key": "ref1",
      "doi-asserted-by": "crossref",
      "first-page": "104",
      "DOI": "10.1038/nrg2041",
      "article-title": "Dynamic genome architecture in the nuclear space: regulation of gene expression in three dimensions.",
      "volume": "8",
      "author": "C Lanctot",
      "year": "2007",
      "journal-title": "Nat Rev Genet"
    },
    {
      "key": "ref2",
      "doi-asserted-by": "crossref",
      "first-page": "787",
      "DOI": "10.1016/j.cell.2007.01.028",
      "article-title": "Beyond the sequence: cellular organization of genome function.",
      "volume": "128",
      "author": "T Misteli",
      "year": "2007",
      "journal-title": "Cell"
    },
    {
      "key": "ref3",
      "doi-asserted-by": "crossref",
      "first-page": "623",
      "DOI": "10.1038/ng1051",
      "article-title": "Long-range chromatin regulatory interactions in vivo.",
      "volume": "32",
      "author": "D Carter",
      "year": "2002",
      "journal-title": "Nat Genet"
    },
    {
      "key": "ref4",
      "doi-asserted-by": "crossref",
      "first-page": "1453",
      "DOI": "10.1016/S1097-2765(02)00781-5",
      "article-title": "Looping and interaction between hypersensitive sites in the active beta-globin locus.",
      "volume": "10",
      "author": "B Tolhuis",
      "year": "2002",
      "journal-title": "Mol Cell"
    },
    {
      "key": "ref5",
      "doi-asserted-by": "crossref",
      "first-page": "190",
      "DOI": "10.1038/ng1244",
      "article-title": "The beta-globin nuclear compartment in development and erythroid differentiation.",
      "volume": "35",
      "author": "RJ Palstra",
      "year": "2003",
      "journal-title": "Nat Genet"
    },
    {
      "key": "ref6",
      "doi-asserted-by": "crossref",
      "first-page": "2485",
      "DOI": "10.1101/gad.317004",
      "article-title": "The active spatial organization of the beta-globin locus requires the transcription factor EKLF.",
      "volume": "18",
      "author": "R Drissen",
      "year": "2004",
      "journal-title": "Genes Dev"
    },
    {
      "key": "ref7",
      "doi-asserted-by": "crossref",
      "first-page": "453",
      "DOI": "10.1016/j.molcel.2004.12.028",
      "article-title": "Proximity among distant regulatory elements at the beta-globin locus requires GATA-1 and FOG-1.",
      "volume": "17",
      "author": "CR Vakoc",
      "year": "2005",
      "journal-title": "Mol Cell"
    },
    {
      "key": "ref8",
      "doi-asserted-by": "crossref",
      "first-page": "2349",
      "DOI": "10.1101/gad.399506",
      "article-title": "CTCF mediates long-range chromatin looping and local histone modification in the beta-globin locus.",
      "volume": "20",
      "author": "E Splinter",
      "year": "2006",
      "journal-title": "Genes Dev"
    },
    {
      "key": "ref9",
      "doi-asserted-by": "crossref",
      "first-page": "1017",
      "DOI": "10.1038/ni1115",
      "article-title": "Long-range intrachromosomal interactions in the T helper type 2 cytokine locus.",
      "volume": "5",
      "author": "CG Spilianakis",
      "year": "2004",
      "journal-title": "Nat Immunol"
    },
    {
      "key": "ref10",
      "doi-asserted-by": "crossref",
      "first-page": "889",
      "DOI": "10.1038/ng1402",
      "article-title": "Interaction between differentially methylated regions partitions the imprinted genes Igf2 and H19 into parent-specific chromatin loops.",
      "volume": "36",
      "author": "A Murrell",
      "year": "2004",
      "journal-title": "Nat Genet"
    },
    {
      "key": "ref11",
      "doi-asserted-by": "crossref",
      "first-page": "1119",
      "DOI": "10.1101/gad.292104",
      "article-title": "Chromatin decondensation and nuclear reorganization of the HoxB locus upon induction of transcription.",
      "volume": "18",
      "author": "S Chambeyron",
      "year": "2004",
      "journal-title": "Genes Dev"
    },
    {
      "key": "ref12",
      "doi-asserted-by": "crossref",
      "first-page": "1565",
      "DOI": "10.1242/jcs.113.9.1565",
      "article-title": "Large-scale chromatin organization of the major histocompatibility complex and other regions of human chromosome 6 and its response to interferon in interphase nuclei.",
      "volume": "113 ( Pt 9)",
      "author": "EV Volpi",
      "year": "2000",
      "journal-title": "J Cell Sci"
    },
    {
      "key": "ref13",
      "doi-asserted-by": "crossref",
      "first-page": "669",
      "DOI": "10.1038/nrg1673",
      "article-title": "Replication and transcription: shaping the landscape of the genome.",
      "volume": "6",
      "author": "L Chakalova",
      "year": "2005",
      "journal-title": "Nat Rev Genet"
    },
    {
      "key": "ref14",
      "doi-asserted-by": "crossref",
      "first-page": "e192",
      "DOI": "10.1371/journal.pbio.0050192",
      "article-title": "Myc dynamically and preferentially relocates to a transcription factory occupied by Igh.",
      "volume": "5",
      "author": "CS Osborne",
      "year": "2007",
      "journal-title": "PLoS Biol"
    },
    {
      "key": "ref15",
      "doi-asserted-by": "crossref",
      "first-page": "1348",
      "DOI": "10.1038/ng1896",
      "article-title": "Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C).",
      "volume": "38",
      "author": "M Simonis",
      "year": "2006",
      "journal-title": "Nat Genet"
    },
    {
      "key": "ref16",
      "doi-asserted-by": "crossref",
      "first-page": "347",
      "DOI": "10.1038/ng1102-347",
      "article-title": "Predicting three-dimensional genome structure from transcriptional activity.",
      "volume": "32",
      "author": "PR Cook",
      "year": "2002",
      "journal-title": "Nat Genet"
    },
    {
      "key": "ref17",
      "doi-asserted-by": "crossref",
      "first-page": "4483",
      "DOI": "10.1242/jcs.00819",
      "article-title": "Nongenic transcription, gene regulation and action at a distance.",
      "volume": "116",
      "author": "PR Cook",
      "year": "2003",
      "journal-title": "J Cell Sci"
    },
    {
      "key": "ref18",
      "doi-asserted-by": "crossref",
      "first-page": "126",
      "DOI": "10.1016/j.tig.2007.01.007",
      "article-title": "What are the molecular ties that maintain genomic loops?",
      "volume": "23",
      "author": "D Marenduzzo",
      "year": "2007",
      "journal-title": "Trends Genet"
    },
    {
      "key": "ref19",
      "doi-asserted-by": "crossref",
      "first-page": "3712",
      "DOI": "10.1529/biophysj.105.077685",
      "article-title": "Entropy-driven genome organization.",
      "volume": "90",
      "author": "D Marenduzzo",
      "year": "2006",
      "journal-title": "Biophys J"
    },
    {
      "key": "ref20",
      "doi-asserted-by": "crossref",
      "first-page": "1133",
      "DOI": "10.1042/BST0341133",
      "article-title": "Transcription factories: structures conserved during differentiation and evolution.",
      "volume": "34",
      "author": "I Faro-Trindade",
      "year": "2006",
      "journal-title": "Biochem Soc Trans"
    },
    {
      "key": "ref21",
      "doi-asserted-by": "crossref",
      "first-page": "1723",
      "DOI": "10.1091/mbc.E05-08-0726",
      "article-title": "Splicing speckles are not reservoirs of RNA polymerase II, but contain an inactive form, phosphorylated on serine2 residues of the C-terminal domain.",
      "volume": "17",
      "author": "SQ Xie",
      "year": "2006",
      "journal-title": "Mol Biol Cell"
    },
    {
      "key": "ref22",
      "doi-asserted-by": "crossref",
      "first-page": "e138",
      "DOI": "10.1371/journal.pbio.0040138",
      "article-title": "Intermingling of chromosome territories in interphase suggests role in translocations and transcription-dependent associations.",
      "volume": "4",
      "author": "MR Branco",
      "year": "2006",
      "journal-title": "PLoS Biol"
    },
    {
      "key": "ref23",
      "doi-asserted-by": "crossref",
      "first-page": "2250",
      "DOI": "10.1016/S0021-9258(18)94169-4",
      "article-title": "5,6-Dichloro-1-beta-D-ribofuranosylbenzimidazole inhibits transcription elongation by RNA polymerase II in vitro.",
      "volume": "264",
      "author": "LA Chodosh",
      "year": "1989",
      "journal-title": "J Biol Chem"
    },
    {
      "key": "ref24",
      "doi-asserted-by": "crossref",
      "first-page": "6020",
      "DOI": "10.1093/emboj/17.20.6020",
      "article-title": "Chromatin interaction mechanism of transcriptional control in vivo.",
      "volume": "17",
      "author": "J Gribnau",
      "year": "1998",
      "journal-title": "Embo J"
    },
    {
      "key": "ref25",
      "doi-asserted-by": "crossref",
      "first-page": "112",
      "DOI": "10.1101/gad.13.1.112",
      "article-title": "Mechanisms of developmental control of transcription in the murine alpha- and beta-globin loci.",
      "volume": "13",
      "author": "T Trimborn",
      "year": "1999",
      "journal-title": "Genes Dev"
    },
    {
      "key": "ref26",
      "doi-asserted-by": "crossref",
      "first-page": "27422",
      "DOI": "10.1074/jbc.M402163200",
      "article-title": "Alpha-amanitin blocks translocation by human RNA polymerase II.",
      "volume": "279",
      "author": "XQ Gong",
      "year": "2004",
      "journal-title": "J Biol Chem"
    },
    {
      "key": "ref27",
      "doi-asserted-by": "crossref",
      "first-page": "1218",
      "DOI": "10.1073/pnas.251664698",
      "article-title": "Structural basis of transcription: alpha-amanitin-RNA polymerase II cocrystal at 2.8 A resolution.",
      "volume": "99",
      "author": "DA Bushnell",
      "year": "2002",
      "journal-title": "Proc Natl Acad Sci U S A"
    },
    {
      "key": "ref28",
      "doi-asserted-by": "crossref",
      "first-page": "2924",
      "DOI": "10.1093/nar/24.15.2924",
      "article-title": "In vivo degradation of RNA polymerase II largest subunit triggered by alpha-amanitin.",
      "volume": "24",
      "author": "VT Nguyen",
      "year": "1996",
      "journal-title": "Nucleic Acids Res"
    },
    {
      "key": "ref29",
      "doi-asserted-by": "crossref",
      "first-page": "1722",
      "DOI": "10.1038/nprot.2007.243",
      "article-title": "Quantitative analysis of chromosome conformation capture assays (3C-qPCR).",
      "volume": "2",
      "author": "H Hagege",
      "year": "2007",
      "journal-title": "Nat Protoc"
    },
    {
      "key": "ref30",
      "doi-asserted-by": "crossref",
      "first-page": "1395",
      "DOI": "10.1182/blood-2006-04-014431",
      "article-title": "Flanking HS-62.5 and 3\u2032HS1, and regions upstream of the LCR are not required for {beta}-globin transcription.",
      "volume": "108",
      "author": "MA Bender",
      "year": "2006",
      "journal-title": "Blood"
    },
    {
      "key": "ref31",
      "doi-asserted-by": "crossref",
      "first-page": "177",
      "DOI": "10.1083/jcb.200507073",
      "article-title": "Coregulated human globin genes are frequently in spatial proximity when active.",
      "volume": "172",
      "author": "JM Brown",
      "year": "2006",
      "journal-title": "J Cell Biol"
    },
    {
      "key": "ref32",
      "article-title": "Transcription and chromatin organization of a housekeeping gene cluster containing an integrated beta-globin Locus Control Region.",
      "author": "D Noordermeer",
      "year": "2008",
      "journal-title": "PLoS Genet In Press"
    },
    {
      "key": "ref33",
      "doi-asserted-by": "crossref",
      "first-page": "27",
      "DOI": "10.1083/jcb.200603083",
      "article-title": "Folding and organization of a contiguous chromosome region according to the gene distribution pattern in primary genomic sequence.",
      "volume": "174",
      "author": "LS Shopland",
      "year": "2006",
      "journal-title": "J Cell Biol"
    },
    {
      "key": "ref34",
      "doi-asserted-by": "crossref",
      "first-page": "16544",
      "DOI": "10.1074/jbc.M701159200",
      "article-title": "Beta-globin active chromatin Hub formation in differentiating erythroid cells and in p45 NF-E2 knock-out mice.",
      "volume": "282",
      "author": "J Kooren",
      "year": "2007",
      "journal-title": "J Biol Chem"
    },
    {
      "key": "ref35",
      "doi-asserted-by": "crossref",
      "first-page": "26850",
      "DOI": "10.1074/jbc.274.38.26850",
      "article-title": "Requirement of an E1A-sensitive coactivator for long-range transactivation by the beta-globin locus control region.",
      "volume": "274",
      "author": "EC Forsberg",
      "year": "1999",
      "journal-title": "J Biol Chem"
    },
    {
      "key": "ref36",
      "doi-asserted-by": "crossref",
      "first-page": "877",
      "DOI": "10.1101/gr.5533506",
      "article-title": "FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) isolates active regulatory elements from human chromatin.",
      "volume": "17",
      "author": "PG Giresi",
      "year": "2007",
      "journal-title": "Genome Res"
    },
    {
      "key": "ref37",
      "doi-asserted-by": "crossref",
      "first-page": "e158",
      "DOI": "10.1371/journal.pgen.0020158",
      "article-title": "Cell cycle-specified fluctuation of nucleosome occupancy at gene promoters.",
      "volume": "2",
      "author": "GJ Hogan",
      "year": "2006",
      "journal-title": "PLoS Genet"
    },
    {
      "key": "ref38",
      "doi-asserted-by": "crossref",
      "first-page": "2927",
      "DOI": "10.1242/jcs.108.9.2927",
      "article-title": "A chromomeric model for nuclear and chromosome structure.",
      "volume": "108 ( Pt 9)",
      "author": "PR Cook",
      "year": "1995",
      "journal-title": "J Cell Sci"
    },
    {
      "key": "ref39",
      "doi-asserted-by": "crossref",
      "first-page": "1790",
      "DOI": "10.1126/science.284.5421.1790",
      "article-title": "The organization of replication and transcription.",
      "volume": "284",
      "author": "PR Cook",
      "year": "1999",
      "journal-title": "Science"
    },
    {
      "key": "ref40",
      "doi-asserted-by": "crossref",
      "first-page": "753",
      "DOI": "10.1083/jcb.200207115",
      "article-title": "Gene density and transcription influence the localization of chromatin outside of chromosome territories detectable by FISH.",
      "volume": "159",
      "author": "NL Mahy",
      "year": "2002",
      "journal-title": "J Cell Biol"
    },
    {
      "key": "ref41",
      "doi-asserted-by": "crossref",
      "first-page": "815",
      "DOI": "10.1083/jcb.200404107",
      "article-title": "Transcription-dependent spatial arrangements of CFTR and adjacent genes in human cell nuclei.",
      "volume": "166",
      "author": "D Zink",
      "year": "2004",
      "journal-title": "J Cell Biol"
    },
    {
      "key": "ref42",
      "doi-asserted-by": "crossref",
      "first-page": "287",
      "DOI": "10.1083/jcb.129.2.287",
      "article-title": "Transcription-dependent redistribution of the large subunit of RNA polymerase II to discrete nuclear domains.",
      "volume": "129",
      "author": "DB Bregman",
      "year": "1995",
      "journal-title": "J Cell Biol"
    },
    {
      "key": "ref43",
      "doi-asserted-by": "crossref",
      "first-page": "777",
      "DOI": "10.1083/jcb.200206019",
      "article-title": "The transcription cycle of RNA polymerase II in living cells.",
      "volume": "159",
      "author": "H Kimura",
      "year": "2002",
      "journal-title": "J Cell Biol"
    },
    {
      "key": "ref44",
      "doi-asserted-by": "crossref",
      "first-page": "R101",
      "DOI": "10.1093/hmg/ddi104",
      "article-title": "Remote control of gene transcription.",
      "volume": "No 1",
      "author": "AG West",
      "year": "2005",
      "journal-title": "Hum Mol Genet 14 Spec"
    },
    {
      "key": "ref45",
      "doi-asserted-by": "crossref",
      "first-page": "e630",
      "DOI": "10.1371/journal.pone.0000630",
      "article-title": "Intergenic transcription, cell-cycle and the developmentally regulated epigenetic profile of the human beta-globin locus.",
      "volume": "2",
      "author": "J Miles",
      "year": "2007",
      "journal-title": "PLoS ONE"
    },
    {
      "key": "ref46",
      "doi-asserted-by": "crossref",
      "first-page": "209",
      "DOI": "10.1038/377209a0",
      "article-title": "Transcription complex stability and chromatin dynamics in vivo.",
      "volume": "377",
      "author": "M Wijgerde",
      "year": "1995",
      "journal-title": "Nature"
    },
    {
      "key": "ref47",
      "doi-asserted-by": "crossref",
      "first-page": "940",
      "DOI": "10.1101/gad.14.8.940",
      "article-title": "Nuclear localization and histone acetylation: a pathway for chromatin opening and transcriptional activation of the human beta-globin locus.",
      "volume": "14",
      "author": "D Schubeler",
      "year": "2000",
      "journal-title": "Genes Dev"
    },
    {
      "key": "ref48",
      "doi-asserted-by": "crossref",
      "first-page": "183",
      "DOI": "10.1007/s10577-005-0845-4",
      "article-title": "The replication timing of CFTR and adjacent genes.",
      "volume": "13",
      "author": "A Englmann",
      "year": "2005",
      "journal-title": "Chromosome Res"
    },
    {
      "key": "ref49",
      "doi-asserted-by": "crossref",
      "first-page": "456",
      "DOI": "10.1016/j.gde.2007.07.009",
      "article-title": "Inter-chromosomal gene regulation in the mammalian cell nucleus.",
      "volume": "17",
      "author": "W de Laat",
      "year": "2007",
      "journal-title": "Curr Opin Genet Dev"
    },
    {
      "key": "ref50",
      "doi-asserted-by": "crossref",
      "first-page": "181",
      "DOI": "10.1083/jcb.200108110",
      "article-title": "The concept of self-organization in cellular architecture.",
      "volume": "155",
      "author": "T Misteli",
      "year": "2001",
      "journal-title": "J Cell Biol"
    },
    {
      "key": "ref51",
      "doi-asserted-by": "crossref",
      "first-page": "111",
      "DOI": "10.1006/meth.2001.1220",
      "article-title": "Fluorescence in situ hybridization analysis of transcript dynamics in cells.",
      "volume": "25",
      "author": "MP van de Corput",
      "year": "2001",
      "journal-title": "Methods"
    }
  ],
  "container-title": "PLoS ONE",
  "original-title": [],
  "language": "en",
  "link": [
    {
      "URL": "http://dx.plos.org/10.1371/journal.pone.0001661",
      "content-type": "unspecified",
      "content-version": "vor",
      "intended-application": "similarity-checking"
    }
  ],
  "deposited": {
    "date-parts": [
      [
        2023,
        5,
        16
      ]
    ],
    "date-time": "2023-05-16T15:13:40Z",
    "timestamp": 1684250020000
  },
  "score": 1,
  "resource": {
    "primary": {
      "URL": "https://dx.plos.org/10.1371/journal.pone.0001661"
    }
  },
  "subtitle": [],
  "editor": [
    {
      "given": "Laszlo",
      "family": "Tora",
      "sequence": "first",
      "affiliation": []
    }
  ],
  "short-title": [],
  "issued": {
    "date-parts": [
      [
        2008,
        2,
        20
      ]
    ]
  },
  "references-count": 51,
  "journal-issue": {
    "issue": "2",
    "published-online": {
      "date-parts": [
        [
          2008,
          2,
          20
        ]
      ]
    }
  },
  "URL": "http://dx.doi.org/10.1371/journal.pone.0001661",
  "relation": {
    "has-review": [
      {
        "id-type": "doi",
        "id": "10.3410/f.1104270.560274",
        "asserted-by": "object"
      }
    ]
  },
  "ISSN": [
    "1932-6203"
  ],
  "subject": [],
  "container-title-short": "PLoS ONE",
  "published": {
    "date-parts": [
      [
        2008,
        2,
        20
      ]
    ]
  }
}