Publications

Wouter Meuleman, Alexander Muratov, Eric Rynes, Jessica Halow, Kristen Lee, Daniel Bates, Morgan Diegel, Douglas Dunn, Fidencio Neri, Athanasios Teodosiadis, Alex, Reynolds, Eric Haugen, Jemma Nelson, Audra Johnson, Mark Frerker, Michael Buckley, Richard Sandstrom, Jeff Vierstra, Rajinder Kaul, John Stamatoyannopoulos (2020). Index and biological spectrum of human DNase I hypersensitive sites. Nature.

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Jeff Vierstra, John Lazar, Richard Sandstrom, Jessica Halow, Kristen Lee, Daniel Bates, Morgan Diegel, Douglas Dunn, Fidencio Neri, Eric Haugen, Eric Rynes, Alex, Reynolds, Jemma Nelson, Audra Johnson, Mark Frerker, Michael Buckley, Rajinder Kaul, Wouter Meuleman, John Stamatoyannopoulos (2020). Global reference mapping of human transcription factor footprints. Nature.

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Carles B. Adsera, Yongjin P. Park, Wouter Meuleman, Manolis Kellis (2019). Integrative analysis of 10,000 epigenomic maps across 800 samples for regulatory genomics and disease dissection. bioRxiv.

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Harmen JG Van De Werken, Josien C Haan, Yana Feodorova, Dominika Bijos, An Weuts, Koen Theunis, Sjoerd JB Holwerda, Wouter Meuleman, Ludo Pagie, Katharina Thanisch, others (2017). Small chromosomal regions position themselves autonomously according to their chromatin class. Genome research.

Eugenio Marco, Wouter Meuleman, Jialiang Huang, Kimberly Glass, Luca Pinello, Jianrong Wang, Manolis Kellis, Guo-Cheng Yuan (2017). Multi-scale chromatin state annotation using a hierarchical hidden Markov model. Nature communications.

Robert AH Van de Ven, Milou Tenhagen, Wouter Meuleman, Jeske JG van Riel, Ron CJ Schackmann, Patrick WB Derksen (2015). Nuclear p120-catenin regulates the anoikis resistance of mouse lobular breast cancer cells through Kaiso-dependent Wnt11 expression. Disease models & mechanisms.

Anshul Kundaje, Wouter Meuleman, Jason Ernst, Misha Bilenky, Angela Yen, Alireza Heravi-Moussavi, Pouya Kheradpour, Zhizhuo Zhang, Jianrong Wang, Michael J Ziller, others (2015). Integrative analysis of 111 reference human epigenomes. Nature.

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Melina Claussnitzer, Simon N Dankel, Kyoung-Han Kim, Gerald Quon, Wouter Meuleman, Christine Haugen, Viktoria Glunk, Isabel S Sousa, Jacqueline L Beaudry, Vijitha Puviindran, others (2015). FTO obesity variant circuitry and adipocyte browning in humans. New England Journal of Medicine.

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Wouter Meuleman, Daan Peric-Hupkes, Jop Kind, Jean-Bernard Beaudry, Ludo Pagie, Manolis Kellis, Marcel Reinders, Lodewyk Wessels, Bas van Steensel (2013). Constitutive nuclear lamina--genome interactions are highly conserved and associated with A/T-rich sequence. Genome research.

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Waseem Akhtar, Johann de Jong, Alexey V Pindyurin, Ludo Pagie, Wouter Meuleman, Jeroen de Ridder, Anton Berns, Lodewyk FA Wessels, Maarten van Lohuizen, Bas van Steensel (2013). Chromatin position effects assayed by thousands of reporters integrated in parallel. Cell.

Nard Kubben, Michiel Adriaens, Wouter Meuleman, Jan Willem Voncken, Bas van Steensel, Tom Misteli (2012). Mapping of lamin A-and progerin-interacting genome regions. Chromosoma.

Wouter Meuleman (2012). Computational Biology in Clinical Proteomics and Chromatin Genomics.

Joke G van Bemmel, Ludo Pagie, Ulrich Braunschweig, Wim Brugman, Wouter Meuleman, Ron M Kerkhoven, Bas van Steensel (2010). The insulator protein SU (HW) fine-tunes nuclear lamina interactions of the Drosophila genome. PloS one.

Daan Peric-Hupkes, Wouter Meuleman, Ludo Pagie, Sophia WM Bruggeman, Irina Solovei, Wim Brugman, Stefan Gräf, Paul Flicek, Ron M Kerkhoven, Maarten van Lohuizen, others (2010). Molecular maps of the reorganization of genome-nuclear lamina interactions during differentiation. Molecular cell.

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Wouter Meuleman, Judith YMN Engwegen, Marie-Christine W Gast, Lodewyk FA Wessels, Marcel JT Reinders (2009). Analysis of mass spectrometry data using sub-spectra. BMC bioinformatics.

Lars Guelen, Ludo Pagie, Emilie Brasset, Wouter Meuleman, Marius B Faza, Wendy Talhout, Bert H Eussen, Annelies de Klein, Lodewyk Wessels, Wouter de Laat, others (2008). Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions. Nature.

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Judith YMN Engwegen, Annekatrien CTM Depla, Marianne E Smits, Annemieke Cats, Henriëtte Tuynman, Henk A Van Heukelem, Pleun Snel, Wouter Meuleman, Lodewyk F Wessels, Jan HM Schellens, others (2008). Detection of colorectal cancer by serum and tissue protein profiling: a prospective study in a population at risk. Biomarker insights.

Wouter Meuleman, Judith YMN Engwegen, Marie-Christine W Gast, Jos H Beijnen, Marcel JT Reinders, Lodewyk FA Wessels (2008). Comparison of normalisation methods for surface-enhanced laser desorption and ionisation (SELDI) time-of-flight (TOF) mass spectrometry data. BMC bioinformatics.

Miranda van Uitert, Wouter Meuleman, Lodewyk Wessels (2008). Biclustering sparse binary genomic data. Journal of Computational Biology.

Wouter Meuleman, Monique CM Welten, Fons J Verbeek (2006). Construction of correlation networks with explicit time-slices using time-lagged, variable interval standard and partial correlation coefficients. International Symposium on Computational Life Science.