Long-Range Chromatin Contacts in Embryonic Stem Cells Reveal a Role for Pluripotency Factors and Polycomb Proteins in Genome Organization von Denholtz, Matthew, Bonora, Giancarlo, Chronis, Constantinos, Splinter, Erik, de Laat, Wouter, Ernst, Jason, Pellegrini, Matteo, Plath, Kathrin

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The complex transcription regulatory landscape of our genome: control in three dimensions von Splinter, Erik, de Laat, Wouter

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Large-scale discovery of mouse transgenic integration sites reveals frequent structural variation and insertional mutagenesis von Goodwin, Leslie O, Splinter, Erik, Davis, Tiffany L, Urban, Rachel, He, Hao, Braun, Robert E, Chesler, Elissa J, Kumar, Vivek, van Min, Max, Ndukum, Juliet, Philip, Vivek M, Reinholdt, Laura G, Svenson, Karen, White, Jacqueline K, Sasner, Michael, Lutz, Cathleen, Murray, Stephen A

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Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture–on-chip (4C) von Simonis, Marieke, Klous, Petra, Splinter, Erik, Moshkin, Yuri, Willemsen, Rob, de Wit, Elzo, van Steensel, Bas, de Laat, Wouter

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Determining long-range chromatin interactions for selected genomic sites using 4C-seq technology: From fixation to computation von Splinter, Erik, de Wit, Elzo, van de Werken, Harmen J.G., Klous, Petra, de Laat, Wouter

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Robust 4C-seq data analysis to screen for regulatory DNA interactions von van de Werken, Harmen J G, Landan, Gilad, Holwerda, Sjoerd J B, Hoichman, Michael, Klous, Petra, Chachik, Ran, Splinter, Erik, Valdes-Quezada, Christian, Öz, Yuva, Bouwman, Britta A M, Verstegen, Marjon J A M, de Wit, Elzo, Tanay, Amos, de Laat, Wouter

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Quantitative analysis of chromosome conformation capture assays (3C-qPCR) von Hagège, Hélène, Klous, Petra, Braem, Caroline, Splinter, Erik, Dekker, Job, Cathala, Guy, de Laat, Wouter, Forné, Thierry

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The pluripotent genome in three dimensions is shaped around pluripotency factors von de Wit, Elzo, Bouwman, Britta A. M., Zhu, Yun, Klous, Petra, Splinter, Erik, Verstegen, Marjon J. A. M., Krijger, Peter H. L., Festuccia, Nicola, Nora, Elphège P., Welling, Maaike, Heard, Edith, Geijsen, Niels, Poot, Raymond A., Chambers, Ian, de Laat, Wouter

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Genetic and epigenetic features direct differential efficiency of Xist-mediated silencing at X-chromosomal and autosomal locations von Loda, Agnese, Brandsma, Johannes H., Vassilev, Ivaylo, Servant, Nicolas, Loos, Friedemann, Amirnasr, Azadeh, Splinter, Erik, Barillot, Emmanuel, Poot, Raymond A., Heard, Edith, Gribnau, Joost

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Efficient mapping of transgene integration sites and local structural changes in Cre transgenic mice using targeted locus amplification von Cain-Hom, Carol, Splinter, Erik, van Min, Max, Simonis, Marieke, van de Heijning, Monique, Martinez, Maria, Asghari, Vida, Cox, J Colin, Warming, Søren

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Dynamics of gene silencing during X inactivation using allele-specific RNA-seq von Marks, Hendrik, Kerstens, Hindrik H D, Barakat, Tahsin Stefan, Splinter, Erik, Dirks, René A M, van Mierlo, Guido, Joshi, Onkar, Wang, Shuang-Yin, Babak, Tomas, Albers, Cornelis A, Kalkan, Tüzer, Smith, Austin, Jouneau, Alice, de Laat, Wouter, Gribnau, Joost, Stunnenberg, Hendrik G

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Diverse gene reprogramming events occur in the same spatial clusters of distal regulatory elements von Hakim, Ofir, Sung, Myong-Hee, Voss, Ty C, Splinter, Erik, John, Sam, Sabo, Peter J, Thurman, Robert E, Stamatoyannopoulos, John A, de Laat, Wouter, Hager, Gordon L

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Elevated enhancer-oncogene contacts and higher oncogene expression levels by recurrent CTCF inactivating mutations in acute T cell leukemia von Smits, Willem K., Vermeulen, Carlo, Hagelaar, Rico, Kimura, Shunsuke, Vroegindeweij, Eric M., Buijs-Gladdines, Jessica G.C.A.M., van de Geer, Ellen, Verstegen, Marjon J.A.M., Splinter, Erik, van Reijmersdal, Simon V., Buijs, Arjan, Galjart, Niels, van Eyndhoven, Winfried, van Min, Max, Kuiper, Roland, Kemmeren, Patrick, Mullighan, Charles G., de Laat, Wouter, Meijerink, Jules P.P.

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An evolutionarily conserved three-dimensional structure in the vertebrate Irx clusters facilitates enhancer sharing and coregulation von Tena, Juan J., Alonso, M. Eva, de la Calle-Mustienes, Elisa, Splinter, Erik, de Laat, Wouter, Manzanares, Miguel, Gómez-Skarmeta, José Luis

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Targeted locus amplification to develop robust patient-specific assays for liquid biopsies in pediatric solid tumors von van Zogchel, Lieke M J, Lak, Nathalie S M, Gelineau, Nina U, Sergeeva, Irina, Stelloo, Ellen, Swennenhuis, Joost, Feitsma, Harma, van Min, Max, Splinter, Erik, Bleijs, Margit, Groot Koerkamp, Marian, Breunis, Willemijn, Meister, Michael Torsten, Kholossy, Waleed Hassan, Holstege, Frank C P, Molenaar, Jan J, de Leng, Wendy W J, Stutterheim, Janine, van der Schoot, C Ellen, Tytgat, Godelieve A M

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Transcription and chromatin organization of a housekeeping gene cluster containing an integrated beta-globin locus control region von Noordermeer, Daan, Branco, Miguel R, Splinter, Erik, Klous, Petra, van Ijcken, Wilfred, Swagemakers, Sigrid, Koutsourakis, Manousos, van der Spek, Peter, Pombo, Ana, de Laat, Wouter

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3C Technology: Analyzing the Spatial Organization of Genomic Loci In Vivo von Splinter, Erik, Grosveld, Frank, Laat, Wouter de

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The Dynamic Architecture of Hox Gene Clusters von Noordermeer, Daan, Leleu, Marion, Splinter, Erik, Rougemont, Jacques, De Laat, Wouter, Duboule, Denis

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A Regulatory Archipelago Controls Hox Genes Transcription in Digits von Montavon, Thomas, Soshnikova, Natalia, Mascrez, Bénédicte, Joye, Elisabeth, Thevenet, Laurie, Splinter, Erik, de Laat, Wouter, Spitz, François, Duboule, Denis

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CTCF Binding Polarity Determines Chromatin Looping von de Wit, Elzo, Vos, Erica S.M., Holwerda, Sjoerd J.B., Valdes-Quezada, Christian, Verstegen, Marjon J.A.M., Teunissen, Hans, Splinter, Erik, Wijchers, Patrick J., Krijger, Peter H.L., de Laat, Wouter

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