Wouter de Laat

Summary

Affiliation: Erasmus MC
Country: The Netherlands

Publications

  1. ncbi request reprint Looping and interaction between hypersensitive sites in the active beta-globin locus
    Bas Tolhuis
    Department of Cell Biology and Genetics, Faculty of Medicine, Erasmus University, Rotterdam, P O Box 1738, 3000DR, Rotterdam, The Netherlands
    Mol Cell 10:1453-65. 2002
  2. ncbi request reprint Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C)
    Marieke Simonis
    Department of Cell Biology and Genetics, Erasmus Medical Centre, PO Box 2040, 3000 CA Rotterdam, The Netherlands
    Nat Genet 38:1348-54. 2006
  3. doi request reprint Three-dimensional organization of gene expression in erythroid cells
    Wouter de Laat
    Department of Cell Biology and Genetics, Erasmus MC, PO Box 2040, 3000 CA Rotterdam, The Netherlands
    Curr Top Dev Biol 82:117-39. 2008
  4. ncbi request reprint Spatial organization of gene expression: the active chromatin hub
    Wouter de Laat
    Department of Cell Biology and Genetics, Faculty of Medicine, Erasmus University, Rotterdam, PO Box 1738, 3000DR Rotterdam, The Netherlands
    Chromosome Res 11:447-59. 2003
  5. ncbi request reprint Long-range DNA contacts: romance in the nucleus?
    Wouter de Laat
    Department of Cell Biology, Erasmus MC, Dr Molewaterplein 50, 3015 GE Rotterdam, The Netherlands
    Curr Opin Cell Biol 19:317-20. 2007
  6. pmc Maintenance of long-range DNA interactions after inhibition of ongoing RNA polymerase II transcription
    Robert Jan Palstra
    Department of Cell Biology and Genetics, Erasmus MC, Rotterdam, The Netherlands
    PLoS ONE 3:e1661. 2008
  7. pmc Transcription and chromatin organization of a housekeeping gene cluster containing an integrated beta-globin locus control region
    Daan Noordermeer
    Department of Cell Biology and Genetics, Erasmus Medical Center, Rotterdam, The Netherlands
    PLoS Genet 4:e1000016. 2008
  8. pmc The active spatial organization of the beta-globin locus requires the transcription factor EKLF
    Roy Drissen
    Erasmus University Medical Center, Department of Cell Biology, The Netherlands
    Genes Dev 18:2485-90. 2004
  9. ncbi request reprint Beta-globin active chromatin Hub formation in differentiating erythroid cells and in p45 NF-E2 knock-out mice
    Jurgen Kooren
    Department of Cell Biology, Erasmus Medical Center, P O Box 2040, 3000 CA Rotterdam, The Netherlands
    J Biol Chem 282:16544-52. 2007
  10. ncbi request reprint The beta-globin nuclear compartment in development and erythroid differentiation
    Robert Jan Palstra
    Department of Cell Biology and Genetics, ErasmusMC, PO Box 1738, 3000 DR Rotterdam, The Netherlands
    Nat Genet 35:190-4. 2003

Collaborators

Detail Information

Publications22

  1. ncbi request reprint Looping and interaction between hypersensitive sites in the active beta-globin locus
    Bas Tolhuis
    Department of Cell Biology and Genetics, Faculty of Medicine, Erasmus University, Rotterdam, P O Box 1738, 3000DR, Rotterdam, The Netherlands
    Mol Cell 10:1453-65. 2002
    ..Moreover, two distant hypersensitive regions participate in these interactions. We propose that clustering of regulatory elements is key to creating and maintaining active chromatin domains and regulating transcription...
  2. ncbi request reprint Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C)
    Marieke Simonis
    Department of Cell Biology and Genetics, Erasmus Medical Centre, PO Box 2040, 3000 CA Rotterdam, The Netherlands
    Nat Genet 38:1348-54. 2006
    ..Our data demonstrate that chromosomes fold into areas of active chromatin and areas of inactive chromatin and establish 4C technology as a powerful tool to study nuclear architecture...
  3. doi request reprint Three-dimensional organization of gene expression in erythroid cells
    Wouter de Laat
    Department of Cell Biology and Genetics, Erasmus MC, PO Box 2040, 3000 CA Rotterdam, The Netherlands
    Curr Top Dev Biol 82:117-39. 2008
    ..Here, we discuss the most recent insight into the three-dimensional organization of gene expression...
  4. ncbi request reprint Spatial organization of gene expression: the active chromatin hub
    Wouter de Laat
    Department of Cell Biology and Genetics, Faculty of Medicine, Erasmus University, Rotterdam, PO Box 1738, 3000DR Rotterdam, The Netherlands
    Chromosome Res 11:447-59. 2003
    ..Possible mechanisms by which distal DNA elements encounter each other in the 3D nuclear space will be discussed...
  5. ncbi request reprint Long-range DNA contacts: romance in the nucleus?
    Wouter de Laat
    Department of Cell Biology, Erasmus MC, Dr Molewaterplein 50, 3015 GE Rotterdam, The Netherlands
    Curr Opin Cell Biol 19:317-20. 2007
    ..Novel high-throughput methods, such as 4C technology, that study DNA interactions in an unbiased manner should uncover the generality of this romantic concept of nuclear architecture...
  6. pmc Maintenance of long-range DNA interactions after inhibition of ongoing RNA polymerase II transcription
    Robert Jan Palstra
    Department of Cell Biology and Genetics, Erasmus MC, Rotterdam, The Netherlands
    PLoS ONE 3:e1661. 2008
    ..We propose that these parameters, more than transcription or RNA polymerase II binding, determine the maintenance of long-range DNA interactions...
  7. pmc Transcription and chromatin organization of a housekeeping gene cluster containing an integrated beta-globin locus control region
    Daan Noordermeer
    Department of Cell Biology and Genetics, Erasmus Medical Center, Rotterdam, The Netherlands
    PLoS Genet 4:e1000016. 2008
    ..We identified long-range interactions between the LCR and two upregulated genes and propose that LCR-gene contacts via chromatin looping determine which genes are transcriptionally enhanced...
  8. pmc The active spatial organization of the beta-globin locus requires the transcription factor EKLF
    Roy Drissen
    Erasmus University Medical Center, Department of Cell Biology, The Netherlands
    Genes Dev 18:2485-90. 2004
    ..We conclude that transcription factors can play an essential role in the three-dimensional organization of gene loci...
  9. ncbi request reprint Beta-globin active chromatin Hub formation in differentiating erythroid cells and in p45 NF-E2 knock-out mice
    Jurgen Kooren
    Department of Cell Biology, Erasmus Medical Center, P O Box 2040, 3000 CA Rotterdam, The Netherlands
    J Biol Chem 282:16544-52. 2007
    ..Moreover, we used knock-out mice to show that the erythroid transcription factor p45 NF-E2, which has been implicated in beta-globin gene regulation, is dispensable for beta-globin ACH formation...
  10. ncbi request reprint The beta-globin nuclear compartment in development and erythroid differentiation
    Robert Jan Palstra
    Department of Cell Biology and Genetics, ErasmusMC, PO Box 1738, 3000 DR Rotterdam, The Netherlands
    Nat Genet 35:190-4. 2003
    ..We conclude that during erythroid differentiation, cis-regulatory DNA elements create a developmentally conserved nuclear compartment dedicated to RNA polymerase II transcription of beta-globin genes...
  11. doi request reprint FISH-eyed and genome-wide views on the spatial organisation of gene expression
    Marieke Simonis
    Department of Cell Biology, Erasmus Medical Center, Dr Molewaterplein 50, 3015 GE, Rotterdam, The Netherlands
    Biochim Biophys Acta 1783:2052-60. 2008
    ..Here we will evaluate evidence implying that the folding of DNA is important for transcriptional control in mammals and we will discuss novel high-throughput techniques expected to further boost our knowledge on nuclear organisation...
  12. pmc CTCF mediates long-range chromatin looping and local histone modification in the beta-globin locus
    Erik Splinter
    Department of Cell Biology and Genetics, Erasmus Medical Center, 3000 DR Rotterdam, The Netherlands
    Genes Dev 20:2349-54. 2006
    ..We postulate that throughout the genome, relative position and stability of CTCF-mediated loops determine their effect on enhancer-promoter interactions, with gene insulation as one possible outcome...
  13. doi request reprint Beta-globin regulation and long-range interactions
    Robert Jan Palstra
    Department of Cell Biology and Genetics, Erasmus MC, 3000 CA Rotterdam, The Netherlands
    Adv Genet 61:107-42. 2008
    ....
  14. pmc Multiple interactions between regulatory regions are required to stabilize an active chromatin hub
    George P Patrinos
    Erasmus University Medical Center, Faculty of Medicine and Health Sciences, MGC Department of Cell Biology and Genetics, Rotterdam, 3000 DR, The Netherlands
    Genes Dev 18:1495-509. 2004
    ..We conclude that multiple interactions between the LCR and the beta-globin gene are required to maintain the appropriate spatial configuration in vivo...
  15. ncbi request reprint Inter-chromosomal gene regulation in the mammalian cell nucleus
    Wouter de Laat
    Department of Cell Biology, Erasmus MC, Dr Molewaterplein 50, 3015 GE Rotterdam, The Netherlands
    Curr Opin Genet Dev 17:456-64. 2007
    ..This stochastic concept of nuclear organization predicts that tissue-specific interactions between two selected loci present on different chromosomes will be rare...
  16. doi request reprint Joining the loops: beta-globin gene regulation
    Daan Noordermeer
    Department of Cell Biology and Genetics, Erasmus Medical Center, 3000 CA Rotterdam, The Netherlands
    IUBMB Life 60:824-33. 2008
    ..Here we discuss the significance of ACH formation, provide an overview of the proteins implicated in chromatin looping at the beta-globin locus, and evaluate the relationship between nuclear organization and beta-globin gene expression...
  17. ncbi request reprint An evaluation of 3C-based methods to capture DNA interactions
    Marieke Simonis
    Department of Cell Biology and Genetics, Erasmus MC, PO Box 2040, 3000 CA, Rotterdam
    Nat Methods 4:895-901. 2007
    ..Here we discuss the intricacies of 3C and new 3C-based methods including the 4C, 5C and ChIP-loop assay...
  18. ncbi request reprint 3C technology: analyzing the spatial organization of genomic loci in vivo
    Erik Splinter
    Department of Cell Biology, ErasmusMC, 3015 GE Rotterdam, The Netherlands
    Methods Enzymol 375:493-507. 2004
  19. pmc Allelic exclusion of the immunoglobulin heavy chain locus is independent of its nuclear localization in mature B cells
    Sjoerd J B Holwerda
    Hubrecht Institute KNAW and University Medical Center Utrecht, Utrecht 3584 CT, The Netherlands
    Nucleic Acids Res 41:6905-16. 2013
    ..This, we speculate, may help to restrict enhancer activity to the productively rearranged VH promoter element. ..
  20. doi request reprint Integrated transcript and genome analyses reveal NKX2-1 and MEF2C as potential oncogenes in T cell acute lymphoblastic leukemia
    Irene Homminga
    Department of Pediatric Oncology Hematology, Erasmus MC Sophia Children s Hospital, Rotterdam, The Netherlands
    Cancer Cell 19:484-97. 2011
    ..We propose NKX2-1, NKX2-2, and MEF2C as T-ALL oncogenes that are activated by various rearrangements...
  21. doi request reprint Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions
    Lars Guelen
    Division of Molecular Biology, Netherlands Cancer Institute, Plesmanlaan 121, Amsterdam, The Netherlands
    Nature 453:948-51. 2008
    ..Taken together, these results demonstrate that the human genome is divided into large, discrete domains that are units of chromosome organization within the nucleus...
  22. ncbi request reprint Quantitative analysis of chromosome conformation capture assays (3C-qPCR)
    Hélène Hagège
    UMR5535 CNRS UMII, IFR122, Institut de Genetique Moleculaire de Montpellier, IGMM, 1919, route de Mende, 34293 Montpellier Cedex 5, France
    Nat Protoc 2:1722-33. 2007
    ..Here, we provide a detailed protocol for this method, which we have named 3C-qPCR. Once preliminary controls and optimizations have been performed, the whole procedure (3C assays and quantitative analyses) can be completed in 7-9 days...