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ArticlesPeer ReviewedFull Text
Transcription factors and 3D genome conformation in cell-fate decisions
Author / Creator:Stadhouders, Ralph ; Filion, Guillaume J. ; Graf, Thomas
Publisher:London: Nature Publishing Group UK
Journal title:Nature (London), 2019-05, Vol.569 (7756), p.345-354
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Spatially clustered loci with multiple enhancers are frequent targets of HIV-1 integration
Author / Creator:Lucic, Bojana ; Chen, Heng-Chang ; Kuzman, Maja ; Zorita, Eduard ; Wegner, Julia ; Minneker, Vera ; Wang, Wei ; Fronza, Raffaele ; Laufs, Stefanie ; Schmidt, Manfred ; Stadhouders, Ralph ; Roukos, Vassilis ; Vlahovicek, Kristian ; Filion, Guillaume J. ; Lusic, Marina
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2019-09, Vol.10 (1), p.4059-12, Article 4059
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Transcriptional activation during cell reprogramming correlates with the formation of 3D open chromatin hubs
Author / Creator:Di Stefano, Marco ; Stadhouders, Ralph ; Farabella, Irene ; Castillo, David ; Serra, François ; Graf, Thomas ; Marti-Renom, Marc A.
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2020-05, Vol.11 (1), p.2564-2564, Article 2564
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Transcription factors orchestrate dynamic interplay between genome topology and gene regulation during cell reprogramming
Author / Creator:Stadhouders, Ralph ; Vidal, Enrique ; Serra, François ; Di Stefano, Bruno ; Le Dily, François ; Quilez, Javier ; Gomez, Antonio ; Collombet, Samuel ; Berenguer, Clara ; Cuartero, Yasmina ; Hecht, Jochen ; Filion, Guillaume J. ; Beato, Miguel ; Marti-Renom, Marc A. ; Graf, Thomas
Publisher:New York: Nature Publishing Group US
Journal title:Nature genetics, 2018-02, Vol.50 (2), p.238-249
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Rapid identification of human mast cell degranulation regulators using functional genomics coupled to high-resolution confocal microscopy
Author / Creator:Folkerts, Jelle ; Gaudenzio, Nicolas ; Maurer, Marcus ; Hendriks, Rudi W. ; Stadhouders, Ralph ; Tam, See-Ying ; Galli, Stephen J.
Publisher:London: Nature Publishing Group UK
Journal title:Nature protocols, 2020-03, Vol.15 (3), p.1285-1310
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HBS1L-MYB intergenic variants modulate fetal hemoglobin via long-range MYB enhancers
Author / Creator:Stadhouders, Ralph ; Aktuna, Suleyman ; Thongjuea, Supat ; Aghajanirefah, Ali ; Pourfarzad, Farzin ; van Ijcken, Wilfred ; Lenhard, Boris ; Rooks, Helen ; Best, Steve ; Menzel, Stephan ; Grosveld, Frank ; Thein, Swee Lay ; Soler, Eric
Publisher:United States: American Society for Clinical Investigation
Journal title:The Journal of clinical investigation, 2014-04, Vol.124 (4), p.1699-1710
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CTCF chromatin residence time controls three-dimensional genome organization, gene expression and DNA methylation in pluripotent cells
Author / Creator:Soochit, Widia ; Sleutels, Frank ; Stik, Gregoire ; Bartkuhn, Marek ; Basu, Sreya ; Hernandez, Silvia C. ; Merzouk, Sarra ; Vidal, Enrique ; Boers, Ruben ; Boers, Joachim ; van der Reijden, Michael ; Geverts, Bart ; van Cappellen, Wiggert A. ; van den Hout, Mirjam ; Ozgur, Zeliha ; van IJcken, Wilfred F. J. ; Gribnau, Joost ; Renkawitz, Rainer ; Graf, Thomas ; Houtsmuller, Adriaan ; Grosveld, Frank ; Stadhouders, Ralph ; Galjart, Niels
Publisher:London: Nature Publishing Group UK
Journal title:Nature cell biology, 2021-08, Vol.23 (8), p.881-893
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Severe COVID-19-associated variants linked to chemokine receptor gene control in monocytes and macrophages
Author / Creator:Stikker, Bernard S ; Stik, Grégoire ; van Ouwerkerk, Antoinette F ; Trap, Lianne ; Spicuglia, Salvatore ; Hendriks, Rudi W ; Stadhouders, Ralph
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2022-04, Vol.23 (1), p.96-96, Article 96
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Type-2 CD8+ T-cell formation relies on interleukin-33 and is linked to asthma exacerbations
Author / Creator:van der Ploeg, Esmee K. ; Krabbendam, Lisette ; Vroman, Heleen ; van Nimwegen, Menno ; de Bruijn, Marjolein J. W. ; de Boer, Geertje M. ; Bergen, Ingrid M. ; Kool, Mirjam ; Tramper-Standers, Gerdien A. ; Braunstahl, Gert-Jan ; Huylebroeck, Danny ; Hendriks, Rudi W. ; Stadhouders, Ralph
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2023-08, Vol.14 (1), p.5137-5137, Article 5137
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Multiplexed chromosome conformation capture sequencing for rapid genome-scale high-resolution detection of long-range chromatin interactions
Author / Creator:Stadhouders, Ralph ; Kolovos, Petros ; Brouwer, Rutger ; Zuin, Jessica ; van den Heuvel, Anita ; Kockx, Christel ; Palstra, Robert-Jan ; Wendt, Kerstin S ; Grosveld, Frank ; van Ijcken, Wilfred ; Soler, Eric
Publisher:London: Nature Publishing Group UK
Journal title:Nature protocols, 2013-03, Vol.8 (3), p.509-524
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Dynamics of alternative splicing during somatic cell reprogramming reveals functions for RNA-binding proteins CPSF3, hnRNP UL1, and TIA1
Author / Creator:Vivori, Claudia ; Papasaikas, Panagiotis ; Stadhouders, Ralph ; Di Stefano, Bruno ; Rubio, Anna Ribó ; Balaguer, Clara Berenguer ; Generoso, Serena ; Mallol, Anna ; Sardina, José Luis ; Payer, Bernhard ; Graf, Thomas ; Valcárcel, Juan
Publisher:England: BioMed Central Ltd
Journal title:Genome Biology, 2021-06, Vol.22 (1), p.171-171, Article 171
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Author Correction: Spatially clustered loci with multiple enhancers are frequent targets of HIV-1 integration
Author / Creator:Lucic, Bojana ; Chen, Heng-Chang ; Kuzman, Maja ; Zorita, Eduard ; Wegner, Julia ; Minneker, Vera ; Wang, Wei ; Fronza, Raffaele ; Laufs, Stefanie ; Schmidt, Manfred ; Stadhouders, Ralph ; Roukos, Vassilis ; Vlahovicek, Kristian ; Filion, Guillaume J. ; Lusic, Marina
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2021-10, Vol.12 (1), p.6326-6326, Article 6326
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Derepression of an endogenous long terminal repeat activates the CSF1R proto-oncogene in human lymphoma
Author / Creator:Lamprecht, Björn ; Walter, Korden ; Kreher, Stephan ; Kumar, Raman ; Hummel, Michael ; Lenze, Dido ; Köchert, Karl ; Bouhlel, Mohamed Amine ; Richter, Julia ; Soler, Eric ; Stadhouders, Ralph ; Jöhrens, Korinna ; Wurster, Kathrin D ; Callen, David F ; Harte, Michael F ; Giefing, Maciej ; Barlow, Rachael ; Stein, Harald ; Anagnostopoulos, Ioannis ; Janz, Martin ; Cockerill, Peter N ; Siebert, Reiner ; Dörken, Bernd ; Bonifer, Constanze ; Mathas, Stephan
Publisher:New York: Nature Publishing Group US
Journal title:Nature medicine, 2010-05, Vol.16 (5), p.571-579
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Control of developmentally primed erythroid genes by combinatorial co-repressor actions
Author / Creator:Stadhouders, Ralph ; Cico, Alba ; Stephen, Tharshana ; Thongjuea, Supat ; Kolovos, Petros ; Baymaz, H. Irem ; Yu, Xiao ; Demmers, Jeroen ; Bezstarosti, Karel ; Maas, Alex ; Barroca, Vilma ; Kockx, Christel ; Ozgur, Zeliha ; van Ijcken, Wilfred ; Arcangeli, Marie-Laure ; Andrieu-Soler, Charlotte ; Lenhard, Boris ; Grosveld, Frank ; Soler, Eric
Publisher:London: Nature Publishing Group UK
Journal title:Nature communications, 2015-11, Vol.6 (1), p.8893-8893, Article 8893
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Group 2 Innate Lymphoid Cells in Human Respiratory Disorders
Author / Creator:van der Ploeg, Esmee K. ; Carreras Mascaro, Ana ; Huylebroeck, Danny ; Hendriks, Rudi W. ; Stadhouders, Ralph
Publisher:Basel, Switzerland: S. Karger AG
Journal title:Journal of innate immunity, 2020-01, Vol.12 (1), p.47-62
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Exploring intrinsic variability between cultured nasal and bronchial epithelia in cystic fibrosis
Author / Creator:Rodenburg, Lisa W. ; Metzemaekers, Mieke ; van der Windt, Isabelle S. ; Smits, Shannon M. A. ; den Hertog-Oosterhoff, Loes A. ; Kruisselbrink, Evelien ; Brunsveld, Jesse E. ; Michel, Sabine ; de Winter-de Groot, Karin M. ; van der Ent, Cornelis K. ; Stadhouders, Ralph ; Beekman, Jeffrey M. ; Amatngalim, Gimano D.
Publisher:London: Nature Publishing Group UK
Journal title:Scientific reports, 2023-10, Vol.13 (1), p.18573-18573, Article 18573
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CTCF is dispensable for immune cell transdifferentiation but facilitates an acute inflammatory response
Author / Creator:Stik, Grégoire ; Vidal, Enrique ; Barrero, Mercedes ; Cuartero, Sergi ; Vila-Casadesús, Maria ; Mendieta-Esteban, Julen ; Tian, Tian V. ; Choi, Jinmi ; Berenguer, Clara ; Abad, Amaya ; Borsari, Beatrice ; le Dily, François ; Cramer, Patrick ; Marti-Renom, Marc A. ; Stadhouders, Ralph ; Graf, Thomas
Journal title:Nature genetics, 2020-07, Vol.52 (7), p.655-661
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The mouse KLF1 Nan variant impairs nuclear condensation and erythroid maturation
Author / Creator:Cantú, Ileana ; van de Werken, Harmen J G ; Gillemans, Nynke ; Stadhouders, Ralph ; Heshusius, Steven ; Maas, Alex ; Esteghamat, Fatemehsadat ; Ozgur, Zeliha ; van IJcken, Wilfred F J ; Grosveld, Frank ; von Lindern, Marieke ; Philipsen, Sjaak ; van Dijk, Thamar B
Publisher:United States: Public Library of Science
Journal title:PloS one, 2019-03, Vol.14 (3), p.e0208659-e0208659
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Dendritic cell vaccination and CD40-agonist combination therapy licenses T cell-dependent antitumor immunity in a pancreatic carcinoma murine model
Author / Creator:Lau, Sai Ping ; van Montfoort, Nadine ; Kinderman, Priscilla ; Lukkes, Melanie ; Klaase, Larissa ; van Nimwegen, Menno ; van Gulijk, Mandy ; Dumas, Jasper ; Mustafa, Dana A M ; Lievense, Sanne L A ; Groeneveldt, Christianne ; Stadhouders, Ralph ; Li, Yunlei ; Stubbs, Andrew ; Marijt, Koen A ; Vroman, Heleen ; van der Burg, Sjoerd H ; Aerts, Joachim ; van Hall, Thorbald ; Dammeijer, Floris ; van Eijck, Casper H J
Publisher:England: BMJ Publishing Group Ltd
Journal title:Journal for immunotherapy of cancer, 2020-07, Vol.8 (2), p.e000772
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Pre-B cell receptor signaling induces immunoglobulin κ locus accessibility by functional redistribution of enhancer-mediated chromatin interactions
Author / Creator:Stadhouders, Ralph ; de Bruijn, Marjolein J W ; Rother, Magdalena B ; Yuvaraj, Saravanan ; Ribeiro de Almeida, Claudia ; Kolovos, Petros ; Van Zelm, Menno C ; van Ijcken, Wilfred ; Grosveld, Frank ; Soler, Eric ; Hendriks, Rudi W
Publisher:United States: Public Library of Science
Journal title:PLoS biology, 2014-02, Vol.12 (2), p.e1001791-e1001791
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Showing 1 to 20 of 44 results

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Transcription factors and 3D genome conformation in cell-fate decisions

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Spatially clustered loci with multiple enhancers are frequent targets of HIV-1 integration

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Transcriptional activation during cell reprogramming correlates with the formation of 3D open chromatin hubs

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Transcription factors orchestrate dynamic interplay between genome topology and gene regulation during cell reprogramming

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Rapid identification of human mast cell degranulation regulators using functional genomics coupled to high-resolution confocal microscopy

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HBS1L-MYB intergenic variants modulate fetal hemoglobin via long-range MYB enhancers

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CTCF chromatin residence time controls three-dimensional genome organization, gene expression and DNA methylation in pluripotent cells

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Severe COVID-19-associated variants linked to chemokine receptor gene control in monocytes and macrophages

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Type-2 CD8+ T-cell formation relies on interleukin-33 and is linked to asthma exacerbations

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Multiplexed chromosome conformation capture sequencing for rapid genome-scale high-resolution detection of long-range chromatin interactions

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Dynamics of alternative splicing during somatic cell reprogramming reveals functions for RNA-binding proteins CPSF3, hnRNP UL1, and TIA1

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Author Correction: Spatially clustered loci with multiple enhancers are frequent targets of HIV-1 integration

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Derepression of an endogenous long terminal repeat activates the CSF1R proto-oncogene in human lymphoma

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Control of developmentally primed erythroid genes by combinatorial co-repressor actions

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Group 2 Innate Lymphoid Cells in Human Respiratory Disorders

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Exploring intrinsic variability between cultured nasal and bronchial epithelia in cystic fibrosis

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CTCF is dispensable for immune cell transdifferentiation but facilitates an acute inflammatory response

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The mouse KLF1 Nan variant impairs nuclear condensation and erythroid maturation

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Dendritic cell vaccination and CD40-agonist combination therapy licenses T cell-dependent antitumor immunity in a pancreatic carcinoma murine model

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Pre-B cell receptor signaling induces immunoglobulin κ locus accessibility by functional redistribution of enhancer-mediated chromatin interactions

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