Michiel Vermeulen

Michiel Vermeulen

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Michiel Vermeulen

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Maintenance of spatial gene expression by Polycomb-mediated repression after formation of a vertebrate body plan.

Development 2019 Sep 5. Epub 2019 Sep 5.

Radboud University, Faculty of Science, Department of Molecular Biology, Radboud Institute for Molecular Life Sciences, Nijmegen, the Netherlands

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http://dx.doi.org/10.1242/dev.178590DOI Listing
September 2019

PRC2.1 and PRC2.2 Synergize to Coordinate H3K27 Trimethylation.

Mol Cell 2019 Sep 5. Epub 2019 Sep 5.

Smurfit Institute of Genetics, Trinity College Dublin, Dublin 2, Ireland. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2019.08.012DOI Listing
September 2019

The Complexity of PRC2 Subcomplexes.

Trends Cell Biol 2019 Aug 6;29(8):660-671. Epub 2019 Jun 6.

Department of Molecular Biology, Radboud Institute for Molecular Life Sciences (RIMLS), Radboud University, Nijmegen 6525GA, The Netherlands. Electronic address:

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http://dx.doi.org/10.1016/j.tcb.2019.05.004DOI Listing
August 2019

The Pluripotency Regulator PRDM14 Requires Hematopoietic Regulator CBFA2T3 to Initiate Leukemia in Mice.

Mol Cancer Res 2019 Jul 23;17(7):1468-1479. Epub 2019 Apr 23.

Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada.

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http://dx.doi.org/10.1158/1541-7786.MCR-18-1327DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6610658PMC
July 2019

Single-Molecule Imaging Uncovers Rules Governing Nonsense-Mediated mRNA Decay.

Mol Cell 2019 Jul 30;75(2):324-339.e11. Epub 2019 May 30.

Oncode Institute, Hubrecht Institute-KNAW and University Medical Center Utrecht, Utrecht, the Netherlands. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2019.05.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6675935PMC
July 2019

Mass Spectrometry-Based Absolute Quantification of Single Embryo Proteomes.

Cold Spring Harb Protoc 2019 Jun 3;2019(6):pdb.prot098376. Epub 2019 Jun 3.

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University, Nijmegen 6500 HB, The Netherlands;

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http://dx.doi.org/10.1101/pdb.prot098376DOI Listing
June 2019

Probing the Tumor Suppressor Function of BAP1 in CRISPR-Engineered Human Liver Organoids.

Cell Stem Cell 2019 Jun 23;24(6):927-943.e6. Epub 2019 May 23.

Oncode Institute, Utrecht, the Netherlands; Hubrecht Institute, KNAW (Royal Netherlands Academy of Arts and Sciences), Utrecht, the Netherlands; The Princess Maxima Center for Pediatric Oncology, Utrecht, the Netherlands; University Medical Center Utrecht, Cancer Genomics Netherlands, 3584CX Utrecht, the Netherlands. Electronic address:

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http://dx.doi.org/10.1016/j.stem.2019.04.017DOI Listing
June 2019

Miniaturised interaction proteomics on a microfluidic platform with ultra-low input requirements.

Nat Commun 2019 04 4;10(1):1525. Epub 2019 Apr 4.

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Oncode Institute, Radboud University Nijmegen, Nijmegen, 6525 GA, The Netherlands.

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http://www.nature.com/articles/s41467-019-09533-y
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http://dx.doi.org/10.1038/s41467-019-09533-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6449397PMC
April 2019

BRD9 binds cell type-specific chromatin regions regulating leukemic cell survival via STAT5 inhibition.

Cell Death Dis 2019 Apr 18;10(5):338. Epub 2019 Apr 18.

Department of Precision Medicine, University of Campania "Luigi Vanvitelli", Vico L. De Crecchio 7, 80138, Napoli, Italy.

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http://dx.doi.org/10.1038/s41419-019-1570-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6472371PMC
April 2019

The interactome of a family of potential methyltransferases in HeLa cells.

Sci Rep 2019 Apr 29;9(1):6584. Epub 2019 Apr 29.

Institute of Functional Epigenetics, Helmholtz Zentrum München, Deutsches Forschungszentrum fuer Gesundheit und Umwelt (GmbH) Ingolstaedter Landstr. 1, 85764, Neuherberg, Germany.

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http://dx.doi.org/10.1038/s41598-019-43010-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6488577PMC
April 2019

The Tudor protein Veneno assembles the ping-pong amplification complex that produces viral piRNAs in Aedes mosquitoes.

Nucleic Acids Res 2019 Mar;47(5):2546-2559

Department of Medical Microbiology, Radboud Institute for Molecular Life Sciences, Radboud University Medical Center, P.O. Box 9101, 6500 HB Nijmegen, The Netherlands.

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https://academic.oup.com/nar/advance-article/doi/10.1093/nar
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http://dx.doi.org/10.1093/nar/gky1266DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6411831PMC
March 2019

Induction and Suppression of NF-κB Signalling by a DNA Virus of .

J Virol 2019 Feb 17;93(3). Epub 2019 Jan 17.

Department of Medical Microbiology, Radboud University Medical Center, Radboud Institute for Molecular Life Sciences, Nijmegen, The Netherlands

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http://jvi.asm.org/lookup/doi/10.1128/JVI.01443-18
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http://dx.doi.org/10.1128/JVI.01443-18DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6340046PMC
February 2019

Integrative Proteomic Profiling Reveals PRC2-Dependent Epigenetic Crosstalk Maintains Ground-State Pluripotency.

Cell Stem Cell 2019 Jan 21;24(1):123-137.e8. Epub 2018 Nov 21.

Department of Molecular Biology, Faculty of Science, Radboud University, Radboud Institute for Molecular Life Sciences (RIMLS), 6525GA Nijmegen, the Netherlands. Electronic address:

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http://dx.doi.org/10.1016/j.stem.2018.10.017DOI Listing
January 2019

NuRD-interacting protein ZFP296 regulates genome-wide NuRD localization and differentiation of mouse embryonic stem cells.

Nat Commun 2018 11 2;9(1):4588. Epub 2018 Nov 2.

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Oncode Institute, Radboud University Nijmegen, Nijmegen, 6500 HB, The Netherlands.

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http://www.nature.com/articles/s41467-018-07063-7
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http://dx.doi.org/10.1038/s41467-018-07063-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6214896PMC
November 2018

Splicing and Chromatin Factors Jointly Regulate Epidermal Differentiation.

Cell Rep 2018 Oct;25(5):1292-1303.e5

Faculty of Science, Radboud University, Nijmegen, the Netherlands; Department of Molecular Developmental Biology, Radboud Institute for Molecular Life Sciences, Nijmegen, the Netherlands. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S22111247183158
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http://dx.doi.org/10.1016/j.celrep.2018.10.017DOI Listing
October 2018

Single-Cell DNA Methylation Profiling: Technologies and Biological Applications.

Trends Biotechnol 2018 09 30;36(9):952-965. Epub 2018 Apr 30.

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Oncode Institute, Radboud University Nijmegen, Nijmegen, The Netherlands. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S01677799183011
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http://dx.doi.org/10.1016/j.tibtech.2018.04.002DOI Listing
September 2018

MTF2 recruits Polycomb Repressive Complex 2 by helical-shape-selective DNA binding.

Nat Genet 2018 07 28;50(7):1002-1010. Epub 2018 May 28.

Department of Molecular Developmental Biology, Radboud University, Faculty of Science, Radboud Institute for Molecular Life Sciences, Nijmegen, the Netherlands.

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http://www.nature.com/articles/s41588-018-0134-8
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http://dx.doi.org/10.1038/s41588-018-0134-8DOI Listing
July 2018

Immuno-detection by sequencing enables large-scale high-dimensional phenotyping in cells.

Nat Commun 2018 06 19;9(1):2384. Epub 2018 Jun 19.

Department of Molecular Developmental Biology, Radboud Institute for Molecular Life Sciences, Radboud University, PO Box 9101, 6500 HB, Nijmegen, The Netherlands.

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http://www.nature.com/articles/s41467-018-04761-0
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http://dx.doi.org/10.1038/s41467-018-04761-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6008431PMC
June 2018

Integrative multi-omics analysis of intestinal organoid differentiation.

Mol Syst Biol 2018 06 26;14(6):e8227. Epub 2018 Jun 26.

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Oncode Institute, Radboud University Nijmegen, Nijmegen, The Netherlands

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6018986PMC
http://dx.doi.org/10.15252/msb.20188227DOI Listing
June 2018

The HDAC inhibitor SAHA regulates CBX2 stability via a SUMO-triggered ubiquitin-mediated pathway in leukemia.

Oncogene 2018 05 22;37(19):2559-2572. Epub 2018 Feb 22.

Department of Biochemistry, Biophysics and General Pathology, University of Campania "Luigi Vanvitelli", Vico L. De Crecchio 7, 80138, Napoli, Italy.

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http://dx.doi.org/10.1038/s41388-018-0143-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5945585PMC
May 2018

ZBTB2 reads unmethylated CpG island promoters and regulates embryonic stem cell differentiation.

EMBO Rep 2018 04 1;19(4). Epub 2018 Feb 1.

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, Nijmegen, The Netherlands

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http://dx.doi.org/10.15252/embr.201744993DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5891434PMC
April 2018

Global profiling of protein-DNA and protein-nucleosome binding affinities using quantitative mass spectrometry.

Nat Commun 2018 04 25;9(1):1653. Epub 2018 Apr 25.

Department of Molecular Biology, Radboud Institute for Molecular Life Sciences, Radboud University, Nijmegen, 6500 HB, The Netherlands.

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http://dx.doi.org/10.1038/s41467-018-04084-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5916898PMC
April 2018

Proteome-wide identification of ubiquitin interactions using UbIA-MS.

Nat Protoc 2018 03 15;13(3):530-550. Epub 2018 Feb 15.

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, Nijmegen, the Netherlands.

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http://dx.doi.org/10.1038/nprot.2017.147DOI Listing
March 2018

Specific Labeling of Stem Cell Activity in Human Colorectal Organoids Using an ASCL2-Responsive Minigene.

Cell Rep 2018 02;22(6):1600-1614

Molecular Cancer Research, Center for Molecular Medicine, University Medical Center Utrecht, Utrecht University, Utrecht, the Netherlands; Oncode Institute, Utrecht, the Netherlands. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2018.01.033DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5847189PMC
February 2018

N-methyladenosine (mA) recruits and repels proteins to regulate mRNA homeostasis.

Nat Struct Mol Biol 2017 Oct 4;24(10):870-878. Epub 2017 Sep 4.

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, Nijmegen, the Netherlands.

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http://dx.doi.org/10.1038/nsmb.3462DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5725193PMC
October 2017

Proteomic landscape of the primary somatosensory cortex upon sensory deprivation.

Gigascience 2017 10;6(10):1-10

Department of Neurophysiology, Donders Institute for Brain, Cognition, and Behaviour, Radboud University, Heyendaalseweg 135, 6525 HJ, Nijmegen, the Netherlands.

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http://dx.doi.org/10.1093/gigascience/gix082DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5632293PMC
October 2017

Phospho-H1 Decorates the Inter-chromatid Axis and Is Evicted along with Shugoshin by SET during Mitosis.

Mol Cell 2017 Aug 3;67(4):579-593.e6. Epub 2017 Aug 3.

Howard Hughes Medical Institute, New York University Langone School of Medicine, New York, NY 10016, USA; Department of Biochemistry and Molecular Pharmacology, New York University Langone School of Medicine, New York, NY 10016, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2017.07.008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5562512PMC
August 2017

Promoter Mutations Ablate GABP Transcription Factor Binding in Melanoma.

Cancer Res 2017 04 20;77(7):1649-1661. Epub 2017 Jan 20.

Laboratory of Translational Genomics, Division of Cancer Epidemiology and Genetics, NCI, NIH, Bethesda, Maryland.

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http://dx.doi.org/10.1158/0008-5472.CAN-16-0919DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6711603PMC
April 2017

An Interaction Landscape of Ubiquitin Signaling.

Mol Cell 2017 Mar 9;65(5):941-955.e8. Epub 2017 Feb 9.

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, Nijmegen 6525, the Netherlands. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2017.01.004DOI Listing
March 2017

Click-MS: Tagless Protein Enrichment Using Bioorthogonal Chemistry for Quantitative Proteomics.

ACS Chem Biol 2016 12 17;11(12):3245-3250. Epub 2016 Oct 17.

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen , Nijmegen, The Netherlands.

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http://dx.doi.org/10.1021/acschembio.6b00520DOI Listing
December 2016

Characterizing Protein-Protein Interactions Using Mass Spectrometry: Challenges and Opportunities.

Trends Biotechnol 2016 10 17;34(10):825-834. Epub 2016 Mar 17.

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, Nijmegen, The Netherlands. Electronic address:

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http://dx.doi.org/10.1016/j.tibtech.2016.02.014DOI Listing
October 2016

Sall4 controls differentiation of pluripotent cells independently of the Nucleosome Remodelling and Deacetylation (NuRD) complex.

Development 2016 09 28;143(17):3074-84. Epub 2016 Jul 28.

Wellcome Trust - Medical Research Council Stem Cell Institute, University of Cambridge, Cambridge CB2 1QR, UK Department of Biochemistry, University of Cambridge, Cambridge CB2 1QR, UK

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5047675PMC
http://dx.doi.org/10.1242/dev.139113DOI Listing
September 2016

The dynamic interactome and genomic targets of Polycomb complexes during stem-cell differentiation.

Nat Struct Mol Biol 2016 07 13;23(7):682-690. Epub 2016 Jun 13.

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, The Netherlands.

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http://dx.doi.org/10.1038/nsmb.3248DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4939079PMC
July 2016

Recruitment of the Mammalian Histone-modifying EMSY Complex to Target Genes Is Regulated by ZNF131.

J Biol Chem 2016 Apr 3;291(14):7313-24. Epub 2016 Feb 3.

From the Department of Molecular Cancer Research, University Medical Center Utrecht, Universiteitsweg 100, 3584CG Utrecht, The Netherlands, Department of Molecular Biology, Radboud Institute for Molecular Life Sciences, Geert Grooteplein Zuid 30, 6525GA Nijmegen, The Netherlands,

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http://dx.doi.org/10.1074/jbc.M115.701227DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4817164PMC
April 2016

Cross-linking immunoprecipitation-MS (xIP-MS): Topological Analysis of Chromatin-associated Protein Complexes Using Single Affinity Purification.

Mol Cell Proteomics 2016 Mar 11;15(3):854-65. Epub 2015 Nov 11.

From the ‡Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, Geert Grooteplein 28, 6525 GA Nijmegen, the Netherlands; §Cancer Genomics Netherlands, University Medical Center Utrecht, 3584 CG Utrecht, the Netherlands

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http://dx.doi.org/10.1074/mcp.M115.053082DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4813705PMC
March 2016

An interaction proteomics survey of transcription factor binding at recurrent TERT promoter mutations.

Proteomics 2016 Feb 8;16(3):417-26. Epub 2016 Jan 8.

Radboud Institute of Molecular Life Sciences, Radboud University Nijmegen, Nijmegen, The Netherlands.

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http://dx.doi.org/10.1002/pmic.201500327DOI Listing
February 2016

In need of good neighbours: transcription factors require local DNA hypomethylation for target binding.

EMBO J 2016 Feb 12;35(4):374-5. Epub 2016 Jan 12.

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences Radboud University, Nijmegen, The Netherlands.

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http://dx.doi.org/10.15252/embj.201593750DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4755117PMC
February 2016

Analysis of the Histone H3.1 Interactome: A Suitable Chaperone for the Right Event.

Mol Cell 2015 Nov 29;60(4):697-709. Epub 2015 Oct 29.

Howard Hughes Medical Institute, New York University School of Medicine, NY 10016, USA; Department of Biochemistry and Molecular Pharmacology, New York University School of Medicine, NY 10016, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2015.08.005DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4656108PMC
November 2015

Perspective on unraveling the versatility of 'co-repressor' complexes.

Biochim Biophys Acta 2015 Aug 28;1849(8):1051-6. Epub 2015 Jun 28.

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, The Netherlands. Electronic address:

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http://dx.doi.org/10.1016/j.bbagrm.2015.06.012DOI Listing
August 2015

Towards elucidating the stability, dynamics and architecture of the nucleosome remodeling and deacetylase complex by using quantitative interaction proteomics.

FEBS J 2015 May 11;282(9):1774-85. Epub 2014 Sep 11.

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, the Netherlands.

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http://dx.doi.org/10.1111/febs.12972DOI Listing
May 2015

Identifying nuclear protein-protein interactions using GFP affinity purification and SILAC-based quantitative mass spectrometry.

Methods Mol Biol 2014 ;1188:207-26

Department of Molecular Cancer Research, University Medical Center Utrecht, 85060, 3508 AB, Utrecht, The Netherlands.

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http://dx.doi.org/10.1007/978-1-4939-1142-4_15DOI Listing
March 2015

Developmental biology. A Me6Age for pluripotency.

Science 2015 Feb;347(6222):614-5

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, Nijmegen, Netherlands.

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http://dx.doi.org/10.1126/science.aaa6262DOI Listing
February 2015

Evolutionary acquisition of cysteines determines FOXO paralog-specific redox signaling.

Antioxid Redox Signal 2015 Jan;22(1):15-28

1 Molecular Cancer Research, Center for Molecular Medicine, University Medical Center Utrecht , Utrecht, The Netherlands .

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http://dx.doi.org/10.1089/ars.2014.6056DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4270166PMC
January 2015

In vivo proximity labeling for the detection of protein-protein and protein-RNA interactions.

J Proteome Res 2014 Dec 29;13(12):6135-43. Epub 2014 Oct 29.

Howard Hughes Medical Institute and Department of Biochemistry, New York University School of Medicine , 522 First Avenue, New York, New York 10016, United States.

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http://dx.doi.org/10.1021/pr500196bDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4261942PMC
December 2014

DNA methylation: old dog, new tricks?

Nat Struct Mol Biol 2014 Nov;21(11):949-54

1] Department of Molecular Cancer Research, University Medical Center Utrecht, Utrecht, the Netherlands. [2] Department of Molecular Biology, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, Nijmegen, the Netherlands. [3] Cancer Genomics Netherlands, the Netherlands.

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http://dx.doi.org/10.1038/nsmb.2910DOI Listing
November 2014

MBD5 and MBD6 interact with the human PR-DUB complex through their methyl-CpG-binding domain.

Proteomics 2014 Oct 24;14(19):2179-89. Epub 2014 Apr 24.

Molecular Cancer Research, Cancer Genomics, University Medical Center Utrecht, Utrecht, The Netherlands.

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http://dx.doi.org/10.1002/pmic.201400013DOI Listing
October 2014

Global absolute quantification reveals tight regulation of protein expression in single Xenopus eggs.

Nucleic Acids Res 2014 Sep 23;42(15):9880-91. Epub 2014 Jul 23.

Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, Nijmegen, The Netherlands Cancer Genomics Netherlands, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, Nijmegen, The Netherlands

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https://www.devcom-itn.eu/uploaded/Publucations/Nucl.%20Acid
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http://nar.oxfordjournals.org/content/early/2014/07/22/nar.g
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http://nar.oxfordjournals.org/lookup/doi/10.1093/nar/gku661
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http://dx.doi.org/10.1093/nar/gku661DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4150773PMC
September 2014

Multivalent engagement of TFIID to nucleosomes.

PLoS One 2013 11;8(9):e73495. Epub 2013 Sep 11.

Department of Molecular Cancer Research, University Medical Center Utrecht, Utrecht, The Netherlands ; Netherlands Proteomics Center, Utrecht, The Netherlands.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0073495PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3770614PMC
June 2014

Histone H2A monoubiquitination promotes histone H3 methylation in Polycomb repression.

Nat Struct Mol Biol 2014 Jun 18;21(6):569-71. Epub 2014 May 18.

Max Planck Institute of Biochemistry, Laboratory of Chromatin and Chromosome Biology, Martinsried, Germany.

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http://www.4dcellfate.eu/sites/default/files/article-files/n
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http://www.nature.com/doifinder/10.1038/nsmb.2833
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http://dx.doi.org/10.1038/nsmb.2833DOI Listing
June 2014

A novel microscopy-based high-throughput screening method to identify proteins that regulate global histone modification levels.

J Biomol Screen 2014 Feb 11;19(2):287-96. Epub 2013 Dec 11.

1Department of Molecular Cancer Research, University Medical Centre, Utrecht, The Netherlands.

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http://dx.doi.org/10.1177/1087057113515024DOI Listing
February 2014

Making the most of methylation.

Elife 2013 Sep 3;2:e01387. Epub 2013 Sep 3.

is at the Department of Molecular Cancer Research , University Medical Center Utrecht , Utrecht , Netherlands

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http://dx.doi.org/10.7554/eLife.01387DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3762243PMC
September 2013

Identifying specific protein-DNA interactions using SILAC-based quantitative proteomics.

Methods Mol Biol 2013 ;977:137-57

Department of Molecular Cancer Research, University Medical Center Utrecht, Utrecht, The Netherlands.

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http://dx.doi.org/10.1007/978-1-62703-284-1_11DOI Listing
August 2013

The chromodomain helicase Chd4 is required for Polycomb-mediated inhibition of astroglial differentiation.

EMBO J 2013 May 26;32(11):1598-612. Epub 2013 Apr 26.

Division of Molecular Genetics, Center for Biomedical Genetics and Netherlands Proteomics Center, The Netherlands Cancer Institute, 1066CX Amsterdam, The Netherlands.

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http://dx.doi.org/10.1038/emboj.2013.93DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3671258PMC
May 2013

Redox-dependent control of FOXO/DAF-16 by transportin-1.

Mol Cell 2013 Feb 17;49(4):730-42. Epub 2013 Jan 17.

Molecular Cancer Research, University Medical Center Utrecht, Universiteitsweg 100, 3584 CG Utrecht, The Netherlands.

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http://dx.doi.org/10.1016/j.molcel.2012.12.014DOI Listing
February 2013

Stoichiometry of chromatin-associated protein complexes revealed by label-free quantitative mass spectrometry-based proteomics.

Nucleic Acids Res 2013 Jan 12;41(1):e28. Epub 2012 Oct 12.

Department of Molecular Cancer Research, UMC Utrecht, Universiteitsweg 100, 3584CG Utrecht, The Netherlands.

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http://dx.doi.org/10.1093/nar/gks941DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3592467PMC
January 2013

A map of general and specialized chromatin readers in mouse tissues generated by label-free interaction proteomics.

Mol Cell 2013 Jan 29;49(2):368-78. Epub 2012 Nov 29.

Department of Proteomics and Signal Transduction, Max-Planck Institute of Biochemistry, Am Klopferspitz 18, D-82152 Martinsried, Germany.

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http://dx.doi.org/10.1016/j.molcel.2012.10.026DOI Listing
January 2013

Identifying chromatin readers using a SILAC-based histone peptide pull-down approach.

Methods Enzymol 2012 ;512:137-60

Molecular Cancer Research, University Medical Center Utrecht, 3584 CG, Utrecht, The Netherlands.

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http://dx.doi.org/10.1016/B978-0-12-391940-3.00007-XDOI Listing
December 2012

Proteome-wide analysis of disease-associated SNPs that show allele-specific transcription factor binding.

PLoS Genet 2012 Sep 27;8(9):e1002982. Epub 2012 Sep 27.

Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Martinsried, Germany.

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http://dx.doi.org/10.1371/journal.pgen.1002982DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3459973PMC
September 2012

Differential epigenetic regulation of GATA4 in gastric adenocarcinomas.

Epigenomics 2012 Aug;4(4):367

University Medical Center, Utrecht, Department of Molecular Cancer Research, Universiteitsweg 100, 3584CG Utrecht, The Netherlands.

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http://dx.doi.org/10.2217/epi.12.38DOI Listing
August 2012

Epigenetics and the prognosis of hepatocellular carcinoma.

Epigenomics 2012 Aug;4(4):368

University Medical Center, Utrecht, Department of Molecular Cancer Research, Universiteitsweg 100, 3584CG Utrecht, The Netherlands.

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August 2012

Towards cracking the epigenetic code using a combination of high-throughput epigenomics and quantitative mass spectrometry-based proteomics.

Bioessays 2011 Jul 24;33(7):547-51. Epub 2011 May 24.

Nijmegen Centre for Molecular Life Sciences, Department of Molecular Biology, Radboud University Nijmegen, Nijmegen, The Netherlands.

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http://dx.doi.org/10.1002/bies.201100044DOI Listing
July 2011

Quantitative proteomics for epigenetics.

Chembiochem 2011 Jan 17;12(2):224-34. Epub 2010 Nov 17.

Department of Proteomics and Signal Transduction, Max Planck Institute for Biochemistry, Martinsried, Germany.

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http://dx.doi.org/10.1002/cbic.201000429DOI Listing
January 2011

Regulation of the histone H4 monomethylase PR-Set7 by CRL4(Cdt2)-mediated PCNA-dependent degradation during DNA damage.

Mol Cell 2010 Nov 28;40(3):364-76. Epub 2010 Oct 28.

Department of Biochemistry, New York University School of Medicine, 522 First Avenue, New York, NY 10016, USA.

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http://dx.doi.org/10.1016/j.molcel.2010.10.011DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2999913PMC
November 2010

CDK2AP1/DOC-1 is a bona fide subunit of the Mi-2/NuRD complex.

Mol Biosyst 2010 Sep 4;6(9):1700-6. Epub 2010 Jun 4.

Department of Physiological Chemistry and Cancer Genomics Centre, University Medical Center Utrecht, Utrecht, The Netherlands.

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http://dx.doi.org/10.1039/c004108dDOI Listing
September 2010

Grasping trimethylation of histone H3 at lysine 4.

Epigenomics 2010 Jun;2(3):395-406

Department of Physiological Chemistry, University Medical Centre Utrecht, Universiteitsweg 100, 3584 CG Utrecht, The Netherlands.

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http://dx.doi.org/10.2217/epi.10.11DOI Listing
June 2010

A domesticated transposon mediates the effects of a single-nucleotide polymorphism responsible for enhanced muscle growth.

EMBO Rep 2010 Apr 5;11(4):305-11. Epub 2010 Feb 5.

Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Am Klopferspitz 18, Martinsried 82152, Germany.

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http://dx.doi.org/10.1038/embor.2010.6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2854606PMC
April 2010

Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis.

Sci Signal 2010 Jan 12;3(104):ra3. Epub 2010 Jan 12.

Department of Proteomics and Signal Transduction, Max-Planck-Institute for Biochemistry, Am Klopferspitz 18, D-82152 Martinsried near Munich, Germany.

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http://dx.doi.org/10.1126/scisignal.2000475DOI Listing
January 2010

Quantitative proteomics: a tool to assess cell differentiation.

Curr Opin Cell Biol 2009 Dec 1;21(6):761-6. Epub 2009 Oct 1.

Department of Physiological Chemistry and Cancer Genomics Centre, University Medical Center Utrecht, Utrecht, The Netherlands.

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http://dx.doi.org/10.1016/j.ceb.2009.09.003DOI Listing
December 2009

Two chromatin remodeling activities cooperate during activation of hormone responsive promoters.

PLoS Genet 2009 Jul 17;5(7):e1000567. Epub 2009 Jul 17.

Centre de Regulació Genòmica (CRG), Universitat Pompeu Fabra, Parc de Recerca Biomèdica (PRBB), Barcelona, Spain.

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http://dx.doi.org/10.1371/journal.pgen.1000567DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2704372PMC
July 2009

Phosphorylation of histone H3 Thr-45 is linked to apoptosis.

J Biol Chem 2009 Jun 10;284(24):16575-83. Epub 2009 Apr 10.

Wellcome Trust and Cancer Research UK, Gurdon Institute and Department of Pathology, University of Cambridge, Tennis Court Road, Cambridge CB2 1QN, United Kingdom.

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http://www.jbc.org/lookup/doi/10.1074/jbc.M109.005421
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http://dx.doi.org/10.1074/jbc.M109.005421DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2713519PMC
June 2009

High confidence determination of specific protein-protein interactions using quantitative mass spectrometry.

Curr Opin Biotechnol 2008 Aug 11;19(4):331-7. Epub 2008 Jul 11.

Department of proteomics and signal transduction, Max-Planck Institute for Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany.

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http://dx.doi.org/10.1016/j.copbio.2008.06.001DOI Listing
August 2008

Myeloid transforming protein Evi1 interacts with methyl-CpG binding domain protein 3 and inhibits in vitro histone deacetylation by Mbd3/Mi-2/NuRD.

Biochemistry 2008 Jun 24;47(24):6418-26. Epub 2008 May 24.

Department of Hematology, Erasmus University Medical Center, Rotterdam 3015 GE, The Netherlands.

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http://dx.doi.org/10.1021/bi800267fDOI Listing
June 2008

Arginine methylation at histone H3R2 controls deposition of H3K4 trimethylation.

Nature 2007 Oct 26;449(7164):928-32. Epub 2007 Sep 26.

Gurdon Institute and Department of Pathology, Tennis Court Road, Cambridge CB2 1QN, UK.

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http://dx.doi.org/10.1038/nature06160DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3350864PMC
October 2007