Publications by authors named "Wouter Meuleman"

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Designing synthetic regulatory elements using the generative AI framework DNA-Diffusion.
Lucas Ferreira DaSilva, Simon Senan, Judith F Kribelbauer-Swietek, Zain Munir Patel, Lithin Karmel Louis, Wouter Meuleman

Nat Genet· December 2025

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Programming human cell type-specific gene expression via an atlas of AI-designed enhancers.
Sebastian M Castillo-Hair, Christopher H Yin, Leah VandenBosch, Timothy J Cherry, Wouter Meuleman

bioRxiv· September 2025

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Iterative deep learning design of human enhancers exploits condensed sequence grammar to achieve cell-type specificity.
Christopher Yin, Sebastian Castillo-Hair, Gun Woo Byeon, Peter Bromley, Wouter Meuleman

Cell Syst· July 2025

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Author Correction: Regulatory genomic circuitry of human disease loci by integrative epigenomics.
Carles A Boix, Benjamin T James, Yongjin P Park, Wouter Meuleman, Manolis Kellis

Nature· July 2025

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Epilogos: information-theoretic navigation of multi-tissue functional genomic annotations.
Jacob Quon, Alex Reynolds, Nalu Tripician, Eric Rynes, Athanasios Teodosiadis, Wouter Meuleman

bioRxiv· June 2025

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Iterative deep learning-design of human enhancers exploits condensed sequence grammar to achieve cell type-specificity.
Christopher Yin, Sebastian Castillo Hair, Gun Woo Byeon, Peter Bromley, Wouter Meuleman

bioRxiv· June 2024

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DNA-Diffusion: Leveraging Generative Models for Controlling Chromatin Accessibility and Gene Expression via Synthetic Regulatory Elements.
Lucas Ferreira DaSilva, Simon Senan, Zain Munir Patel, Aniketh Janardhan Reddy, Sameer Gabbita, Wouter Meuleman

bioRxiv· February 2024

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Automated sequence-based annotation and interpretation of the human genome.
Anshul Kundaje, Wouter Meuleman

Nat Genet· July 2022

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A genome-wide atlas of co-essential modules assigns function to uncharacterized genes.
Michael Wainberg, Roarke A Kamber, Akshay Balsubramani, Robin M Meyers, Nasa Sinnott-Armstrong, Wouter Meuleman

Nat Genet· May 2021

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Inaccessible LCG Promoters Act as Safeguards to Restrict T Cell Development to Appropriate Notch Signaling Environments.
Suzanne Furuyama, Qian Vicky Wu, Barbara Varnum-Finney, Richard Sandstrom, Wouter Meuleman

Stem Cell Reports· April 2021

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Regulatory genomic circuitry of human disease loci by integrative epigenomics.
Carles A Boix, Benjamin T James, Yongjin P Park, Wouter Meuleman, Manolis Kellis

Nature· February 2021

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Index and biological spectrum of human DNase I hypersensitive sites.
Wouter Meuleman, Alexander Muratov, Eric Rynes, Jessica Halow, Kristen Lee

Nature· August 2020

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Global reference mapping of human transcription factor footprints.
Jeff Vierstra, John Lazar, Richard Sandstrom, Jessica Halow, Kristen Lee, Wouter Meuleman

Nature· July 2020

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Small chromosomal regions position themselves autonomously according to their chromatin class.
Harmen J G van de Werken, Josien C Haan, Yana Feodorova, Dominika Bijos, An Weuts, Wouter Meuleman

Genome Res· June 2017

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Multi-scale chromatin state annotation using a hierarchical hidden Markov model.
Eugenio Marco, Wouter Meuleman, Jialiang Huang, Kimberly Glass, Luca Pinello

Nat Commun· April 2017

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FTO Obesity Variant Circuitry and Adipocyte Browning in Humans.
Melina Claussnitzer, Simon N Dankel, Kyoung-Han Kim, Gerald Quon, Wouter Meuleman

N Engl J Med· September 2015

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Nuclear p120-catenin regulates the anoikis resistance of mouse lobular breast cancer cells through Kaiso-dependent Wnt11 expression.
Robert A H van de Ven, Milou Tenhagen, Wouter Meuleman, Jeske J G van Riel, Ron C J Schackmann

Dis Model Mech· April 2015

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Integrative analysis of 111 reference human epigenomes.

Nature· February 2015

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Chromatin position effects assayed by thousands of reporters integrated in parallel.
Waseem Akhtar, Johann de Jong, Alexey V Pindyurin, Ludo Pagie, Wouter Meuleman

Cell· August 2013

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Constitutive nuclear lamina-genome interactions are highly conserved and associated with A/T-rich sequence.
Wouter Meuleman, Daan Peric-Hupkes, Jop Kind, Jean-Bernard Beaudry, Ludo Pagie

Genome Res· February 2013

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

Chromosoma· October 2012

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The insulator protein SU(HW) fine-tunes nuclear lamina interactions of the Drosophila genome.
Joke G van Bemmel, Ludo Pagie, Ulrich Braunschweig, Wim Brugman, Wouter Meuleman

PLoS One· November 2010

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Molecular maps of the reorganization of genome-nuclear lamina interactions during differentiation.
Daan Peric-Hupkes, Wouter Meuleman, Ludo Pagie, Sophia W M Bruggeman, Irina Solovei

Mol Cell· May 2010

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Analysis of mass spectrometry data using sub-spectra.
Wouter Meuleman, Judith Y M N Engwegen, Marie-Christine W Gast, Lodewyk F A Wessels, Marcel J T Reinders

BMC Bioinformatics· January 2009

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Biclustering sparse binary genomic data.
Miranda van Uitert, Wouter Meuleman, Lodewyk Wessels

J Comput Biol· December 2008

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