Browsing by Author "Vermeulen, M."

Now showing items 1-50 of 94

CBFβ-MYH11 interferes with megakaryocyte differentiation via modulating a gene program that includes GATA2 and KLF1
Yi, G.; Mandoli, A.; Jussen, L.; Tijchon, E.; Bergen, M.G.J.M. van; Cordonnier, G.; Hansen, M.; Kim, B.; Nguyen, L.N.; Jansen, P. W.; Vermeulen, M. ; Reijden, B.A. van der ; Akker, E. van den; Bond, J.; Martens, J.H.A. et al. sine al.
2019, Article / Letter to editor (Blood Cancer Journal, vol. 9, iss. 3, (2019), pp. 33)
The interactome of a family of potential methyltransferases in HeLa cells
Ignatova, Valentina V.; Jansen, P. W.; Baltissen, M.P.; Vermeulen, Michiel ; Schneider, Robert
2019, Article / Letter to editor (Scientific Reports, vol. 9, (2019), pp. 1-9, article 6584)
The Tudor protein Veneno assembles the ping-pong amplification complex that produces viral piRNAs in Aedes mosquitoes
Joosten, J.; Miesen, P.; Taskopru, E.; Pennings, B. ; Jansen, P.W.T.C.; Huynen, M.A. ; Vermeulen, M. ; Rij, R.P. van
2019, Article / Letter to editor (Nucleic Acids Research, vol. 47, iss. 5, (2019), pp. 2546-2559)
The Nucleosome Remodelling and Deacetylation complex suppresses transcriptional noise during lineage commitment
Burgold, Thomas; Barber, Michael; Kloet, S.L.; Cramard, J.; Gharbi, Sarah; Floyd, Robin; Vermeulen, Michiel ; Dietmann, Sabine; Hendrich, B.
2019, Article / Letter to editor (EMBO Journal, vol. 38, iss. 12, (2019), pp. 1-18, article e100788)
Induction and Suppression of NF-kappa B Signalling by a DNA Virus of Drosophila
Palmer, William H.; Joosten, J.; Overheul, G.J.; Jansen, P. W.; Vermeulen, Michiel ; Obbard, Darren J.; Rij, R.P. van
2019, Article / Letter to editor (Journal of Virology, vol. 93, iss. 3, (2019), pp. 1-20, article e01443-18)
Probing the Tumor Suppressor Function of BAP1 in CRISPR-Engineered Human Liver Organoids
Artegiani, Benedetta; Voorthuijsen, L. van; Lindeboom, R.G.H.; Seinstra, Danielle; Heo, Inha; Tapia, Pablo; Peters, P.J. ; Vermeulen, Michiel ; Clevers, Hans
2019, Article / Letter to editor (Cell Stem Cell, vol. 24, iss. 6, (2019), pp. 927-943, e1-e6)
Single-Molecule Imaging Uncovers Rules Governing Nonsense-Mediated mRNA Decay
Hoek, Tim A.; Khuperkar, Deepak; Lindeboom, R.G.H.; Sonneveld, Stijn; Verhagen, Bram M.P.; Boersma, Sanne; Vermeulen, Michiel ; Tanenbaum, Marvin E.
2019, Article / Letter to editor (Molecular Cell, vol. 75, iss. 2, (2019), pp. 324-+)
The Pluripotency Regulator PRDM14 Requires Hematopoietic Regulator CBFA2T3 to Initiate Leukemia in Mice
Tracey, Lauren J.; Brooke-Bisschop, Travis; Jansen, P. W.; Campos, Eric, I; Vermeulen, Michiel ; Justice, Monica J.
2019, Article / Letter to editor (Molecular Cancer Research, vol. 17, iss. 7, (2019), pp. 1468-1479)
High-throughput identification of human SNPs affecting regulatory element activity
Arensbergen, Joris van; Pagie, Ludo; FitzPatrick, Vincent D.; Haas, Marcel de; Baltissen, M.P.A.; Comoglio, Federico; Vermeulen, Michiel ; Bussemaker, Harmen J.; Steensel, Bas van
2019, Article / Letter to editor (Nature Genetics, vol. 51, iss. 7, (2019), pp. 1160-+)
Maintenance of spatial gene expression by Polycomb-mediated repression after formation of a vertebrate body plan
Rougeot, J.J.Y.; Chrispijn, N.D.; Aben, M.; Elurbe, D.; Andralojc, K.M.; Murphy, P.J.; Jansen, P.W.T.C.; Vermeulen, M. ; Cairns, B.R.; Kamminga, L.M.
2019, Article / Letter to editor (Development, vol. 146, iss. 19, (2019), article dev178590)
PRC2.1 and PRC2.2 Synergize to Coordinate H3K27 Trimethylation
Healy, Evan; Mucha, Marlena; Glancy, Eleanor; Fitzpatrick, Darren J.; Conway, Eric; Neikes, Hannah K.; Mierlo, G. van; Vermeulen, Michiel ; Koseki, Haruhiko; Bracken, Adrian P.
2019, Article / Letter to editor (Molecular Cell, vol. 76, iss. 3, (2019), pp. 437-+)
PAQMAN: Protein-nucleic acid affinity quantification by MAss spectrometry in nuclear extracts
Gräwe, C.; Makowski, Matthew M.; Vermeulen, M.
2019, Article / Letter to editor (Methods: a Journal for Human Science, (2019))
The impact of nonsense-mediated mRNA decay on genetic disease, gene editing and cancer immunotherapy
Lindeboom, R.G.H.; Vermeulen, Michiel ; Lehner, Ben; Supek, Fran
2019, Article / Letter to editor (Nature Genetics, vol. 51, iss. 11, (2019), pp. 1645-+)
Identifying readers for (hydroxy)methylated DNA using quantitative interaction proteomics: advances and challenges ahead
Sequeira, V.M.; Vermeulen, M.
2019, Article / Letter to editor (Journal of Molecular Biology, (2019))
Quantification of Proteins and Histone Marks in Drosophila Embryos Reveals Stoichiometric Relationships Impacting Chromatin Regulation
Bonnet, Jacques; Lindeboom, R.G.H.; Pokrovsky, Daniil; Stricker, Georg; Celik, Muhammed Hasan; Rupp, Ralph A.W.; Vermeulen, Michiel ; Imhof, Axel; Mueller, J.
2019, Article / Letter to editor (Developmental Cell, vol. 51, iss. 5, (2019), pp. 632-+)
The human methyltransferase ZCCHC4 catalyses N6-methyladenosine modification of 28S ribosomal RNA
Pinto, R.; Vågbø, C.B.; Jakobsson, M.E.; Baltissen, M.P.; O'Donohue, M.F.; Malecki, J.M.; Wu, A.; Kirpekar, F.; Olsen, J.V.; Gleizes, P.E.; Vermeulen, M. ; Leidel, S.A.; Slupphaug, G.; Falnes, P.Ø. et al. sine al.
2019, Article / Letter to editor (Nucleic Acids Research, (2019))
Integrative Proteomic Profiling Reveals PRC2-Dependent Epigenetic Crosstalk Maintains Ground-State Pluripotency
Mierlo, G. van; Dirks, R.A.M.; Clerck, Laura De; Brinkman, A.B. ; Huth, Michelle; Kloet, S.L.; Kroeze, L.; Jansen, J.H. ; Vermeulen, Michiel ; Dhaenens, Maarten; Marks, Hendrik et al. sine al.
2019, Article / Letter to editor (Cell Stem Cell, vol. 24, iss. 1, (2019), pp. 123-137, e1-e8)
The Complexity of PRC2 Subcomplexes
van Mierlo, G.; Veenstra, G.J.C. ; Vermeulen, M. ; Marks, H.
2019, Article / Letter to editor (Trends in Cell Biology, vol. 29, iss. 8, (2019), pp. 660-671)
BRD9 binds cell type-specific chromatin regions regulating leukemic cell survival via STAT5 inhibition
Gaudio, Nunzio Del; Costanzo, Antonella Di; Liu, Ning Qing; Conte, Lidio; Migliaccio, Antimo; Vermeulen, Michiel ; Martens, J.H.A. ; Stunnenberg, H.G. ; Altucci, Lucia
2019, Article / Letter to editor (Cell Death and Disease, vol. 10, (2019), pp. 1-14, article 338)
Molecular mechanisms of bleeding disorderassociated GFI1BQ287* mutation and its affected pathways in megakaryocytes and platelets
Oorschot, R. van; Hansen, M.; Koornneef, J.M.; Marneth, A.E.; Bergevoet, S.M. ; Bergen, M.G.J.M. van; Alphen, F.P.J. van; Zwaan, C. de; Martens, J.H.A. ; Vermeulen, M. ; Jansen, P. W. ; Baltissen, M.P.A.; Laros-van Gorkom, B.A.P. ; Janssen, H.; Jansen, J.H. ; Lindern, M. von; Meijer, A.B.; Akker, E. van den; Reijden, B.A. van der et al. sine al.
2019, Article / Letter to editor (Haematologica, vol. 104, iss. 7, (2019), pp. 1460-1472)
Miniaturised interaction proteomics on a microfluidic platform with ultra-low input requirements
Furlan, C.; Dirks, R.A.M.; Thomas, Peter C.; Jones, Robert C.; Wang, Jing; Lynch, Mark; Marks, Hendrik ; Vermeulen, Michiel
2019, Article / Letter to editor (Nature Communications, vol. 10, (2019), article 1525)
EZH1/2 function mostly within canonical PRC2 and exhibit proliferation-dependent redundancy that shapes mutational signatures in cancer
Wassef, Michel; Luscan, Armelle; Aflaki, Setareh; Zielinski, Dina; Jansen, P.W.T.C.; Baymaz, H.I.; Vermeulen, Michiel ; Pasmant, Eric; Margueron, R.
2019, Article / Letter to editor (Proceedings of the National Academy of Sciences USA, vol. 116, iss. 13, (2019), pp. 6075-6080)
EZHIP constrains Polycomb Repressive Complex 2 activity in germ cells
Ragazzini, Roberta; Perez-Palacios, Raquel; Baymaz, H.I.; Diop, Seynabou; Ancelin, Katia; Zielinski, Dina; Jansen, P. W.; Vermeulen, Michiel ; Margueron, R.
2019, Article / Letter to editor (Nature Communications, vol. 10, (2019), article 3858)
TRiC controls transcription resumption after UV damage by regulating Cockayne syndrome protein A
Pines, Alex; Dijk, Madelon; Makowski, M.M.; Meulenbroek, Elisabeth M.; Vrouwe, Mischa G.; Weegen, Yana van der; Vermeulen, Michiel ; Pannu, Navraj S.; Attikum, Haico van
2018, Article / Letter to editor (Nature Communications, vol. 9, (2018), pp. 1-14, article 1040)
Integrative multi-omics analysis of intestinal organoid differentiation
Lindeboom, R.G.H.; Voorthuijsen, L. van; Oost, Koen C.; Rodriguez-Colman, Maria J.; Luna-Velez, Maria V.; Furlan, C.; Snippert, Hugo J.G.; Vermeulen, Michiel
2018, Article / Letter to editor (Molecular Systems Biology, vol. 14, iss. 6, (2018), pp. 1-16, article e8227)
The HDAC inhibitor SAHA regulates CBX2 stability via a SUMO-triggered ubiquitin-mediated pathway in leukemia
Costanzo, Antonella Di; Gaudio, Nunzio Del; Conte, Lidio; Dell'Aversana, Carmela; Vermeulen, Michiel ; The, Hugues de; Nebbioso, Angela; Altucci, Lucia
2018, Article / Letter to editor (Oncogene, vol. 37, iss. 19, (2018), pp. 2559-2572)
Global profiling of protein-DNA and protein-nucleosome binding affinities using quantitative mass spectrometry
Makowski, M.M.; Gräwe, C.; Foster, Benjamin M.; Nguyen, Nhuong V.; Bartke, Till; Vermeulen, Michiel
2018, Article / Letter to editor (Nature Communications, vol. 9, (2018), pp. 1-10, article 1653)
NuRD-interacting protein ZFP296 regulates genome-wide NuRD localization and differentiation of mouse embryonic stem cells
Kloet, S.L.; Karemaker, I.D.; Voorthuijsen, L. van; Lindeboom, R.G.H.; Baltissen, Marijke P.; Edupuganti, Raghu R.; Jansen, P.W.T.C.; Vermeulen, Michiel
2018, Article / Letter to editor (Nature Communications, vol. 9, (2018), pp. 1-11, article 4588)
Targeted degradation of BRD9 reverses oncogenic gene expression in synovial sarcoma
Brien, Gerard L.; Remillard, David; Shi, Junwei; Hemming, Matthew L.; Chabon, Jonathon; Wynne, Kieran; Mierlo, G. van; Vermeulen, Michiel ; Vakoc, Christopher R.; Armstrong, Scott A.
2018, Article / Letter to editor (Elife, vol. 7, (2018), pp. 1-26, article e41305)
Proteome-wide identification of ubiquitin interactions using UbIA-MS
Zhang, X.; Smits, A.H.; Tilburg, Gabrielle B.A. van; Ovaa, H.; Huber, Wolfgang; Vermeulen, Michiel
2018, Article / Letter to editor (Nature Protocols, vol. 13, iss. 3, (2018), pp. 530-550)
Splicing and Chromatin Factors Jointly Regulate Epidermal Differentiation
Tanis, S.E.J.; Jansen, P. W.; Zhou, H. ; Heeringen, S.J. van ; Vermeulen, Michiel ; Kretz, Markus; Mulder, Klaas W.
2018, Article / Letter to editor (Cell Reports, vol. 25, iss. 5, (2018), pp. 1292-1303.e5)
Specific Labeling of Stem Cell Activity in Human Colorectal Organoids Using an ASCL2-Responsive Minigene
Oost, Koen C.; Voorthuijsen, L. van; Fumagalli, Arianna; Lindeboom, R.G.H.; Sprangers, Joep; Omerzu, Manja; Vermeulen, Michiel ; Snippert, Hugo J.G.
2018, Article / Letter to editor (Cell Reports, vol. 22, iss. 6, (2018), pp. 1600-1614)
Erratum to: Proteomic landscape of the primary somatosensory cortex upon sensory deprivation.
Kole, K. ; Lindeboom, R.G.H.; Baltissen, M.P.; Jansen, P. W.; Vermeulen, M. ; Tiesinga, P.H.E.; Celikel, T.
2018, Article / Letter to editor (Gigascience, vol. 7, iss. 7, (2018), pp. 1)
Single-Cell DNA Methylation Profiling: Technologies and Biological Applications
Karemaker, I.D.; Vermeulen, M.
2018, Article / Letter to editor (Trends in Biotechnology, vol. 36, iss. 9, (2018), pp. 952-965)
ZBTB2 reads unmethylated CpG island promoters and regulates embryonic stem cell differentiation
Karemaker, I.D.; Vermeulen, Michiel
2018, Article / Letter to editor (EMBO Reports, vol. 19, iss. 4, (2018), pp. 1-11, article UNSP e44993)
Mass Spectrometry-Based Absolute Quantification of Single Xenopus Embryo Proteomes
Lindeboom, R.G.H.; Smits, A.H. ; Perino, M.; Veenstra, Gert Jan C. ; Vermeulen, M.
2018, Article / Letter to editor (Cold Spring Harbor Protocols, (2018))
Immuno-detection by sequencing enables large-scale high-dimensional phenotyping in cells
Buggenum, A.G.L. van ; Gerlach, J.P.; Tanis, S.E.J.; Hogeweg, M.; Jansen, P.W.T.C.; Middelwijk, Jesse; Vermeulen, M. ; Stunnenberg, H.G. ; Albers, C.A. ; Mulder, K.W.
2018, Article / Letter to editor (Nature Communications, vol. 9, (2018), article 2384)
MTF2 recruits Polycomb Repressive Complex 2 by helical-shape-selective DNA binding
Perino, M.; Mierlo, G. van; Karemaker, I.D.; Genesen, Siebe van ; Vermeulen, Michiel ; Marks, Hendrik ; Heeringen, S.J. van ; Veenstra, Gert Jan C.
2018, Article / Letter to editor (Nature Genetics, vol. 50, iss. 7, (2018), pp. 1002-1016)
Functional characterization of a multi-cancer risk locus on chr5p15.33 reveals regulation of TERT by ZNF148
Fang, J.; Jia, J.; Makowski, M.M.; Xu, M.; Jansen, P. W.; Vermeulen, M. ; Brown, K.M.; Amundadottir, L.T.; al., E.
2017, Article / Letter to editor (Nature Communications, vol. 8, (2017), pp. 1-15, article 15034)
An interaction landscape of ubiquitin signaling
Zhang, X.; Smits, A.H.; van Tilburg, G.B.; Jansen, P. W.; Makowski, M.M.; Ovaa, H.; Vermeulen, M.
2017, Article / Letter to editor (Molecular Cell, vol. 65, iss. 5, (2017), pp. 941-955)
Phospho-h1 decorates the inter-chromatid axis and is evicted along with shugoshin by SET during mitosis
Krishnan, S.; Smits, A.H.; Vermeulen, M. ; Reinberg, D.
2017, Article / Letter to editor (Molecular Cell, vol. 67, iss. 4, (2017), pp. 579-593.e6)
A common intronic variant of PARP1 confers melanoma risk and mediates melanocyte growth via regulation of MITF
Choi, J.Y. ; Xu, M.; Makowski, M.M.; Zhang, T.W.; Law, M.H.; Kovacs, M.A.; Granzhan, A.; Kim, W.D.J.; Parikh, H.; Gartside, M.; Trent, J.M.; Teulade-Fichou, M.P.; Iles, M.M.; Newton-Bishop, J.A.; Bishop, D.T.; MacGregor, S.; Hayward, N.K.; Vermeulen, M. ; Brown, K.M. et al. sine al.
2017, Article / Letter to editor (Nature Genetics, vol. 49, iss. 9, (2017), pp. 1326-1339)
SDHD promoter mutations ablate GABP transcription factor binding in melanoma
Zhang, T.; Xu, M.; Makowski, M.M.; Lee, C.; Kovacs, M.; Fang, J.; Willems, E.; Trent, J.M.; Hayward, N.K.; Vermeulen, M. ; Brown, K.M. et al. sine al.
2017, Article / Letter to editor (Cancer Research, vol. 77, iss. 7, (2017), pp. 1-14)
N6-methyladenosine (m6A) recruits and repels proteins to regulate mRNA homeostasis
Edupuganti, V.S.R.R.; Geiger, S.; Lindeboom, R.G.H.; Shi, H.; Hsu, P.J.; Lu, Z.; Wang, S.; Baltissen, M.P.A.; Jansen, P. W.; Rossa, M.; Muller, M; Stunnenberg, H. ; He, C.; Carell, T.; Vermeulen, M. et al. sine al.
2017, Article / Letter to editor (Nature Structural & Molecular Biology, vol. 24, iss. 10, (2017), pp. 870-878)
Histone propionylation is a mark of active chromatin
Kebede, Adam F.; Nieborak, Anna; Shahidian, Lara Zorro; Gras, Stephanie Le; Richter, Florian; Gomez, Diana Aguilar; Vermeulen, Michiel ; Mittler, Gerhard; Schneider, Robert
2017, Article / Letter to editor (Nature Structural & Molecular Biology, vol. 24, iss. 12, (2017), pp. 1048-1062)
Proteomic landscape of the primary somatosensory cortex upon sensory deprivation
Kole, K. ; Lindeboom, R.G.H.; Baltissen, M.P.A; Vermeulen, M. ; Tiesinga, P.; Celikel, T.
2017, Article / Letter to editor (Gigascience, vol. 6, iss. 10, (2017), pp. 1-10)
The Nucleosome Remodeling and Deacetylase Complex NuRD Is Built from Preformed Catalytically Active Sub-modules
Zhang, W; Aubert, A.; de Segura, J.M.G.; Karuppasamy, M.; Basu, S.; Murthy, A.S.; Diamante, A.; Drury, T.A.; Balmer, J.; Cramard, J.; Watson, A.A.; Lando, D.; Lee, S.F.; Palayret, M.; Kloet, S.L; Smits, A.H.; Deery, M.J.; Vermeulen, M. ; Hendrich, B.; Klenerman, D.; Schaffitzel, C.; Berger, I.; Laue, E.D. et al. sine al.
2016, Article / Letter to editor (Journal of Molecular Biology, vol. 428, iss. 14, (2016), pp. 2931-2942)
ZMYND8 Co-localizes with NuRD on Target Genes and Regulates Poly(ADP-Ribose)-Dependent Recruitment of GATAD2A/NuRD to Sites of DNA Damage
Spruijt, C.G. ; Luijsterburg, M.S.; Menafra, R.; Lindeboom, R.G.H.; Jansen, P. W.; Edupuganti, V.S.R.R.; Baltissen, M.P.; Wiegant, W.W.; Voelker-Albert, M.C.; Matarese, F. ; Mensinga, A.; Poser, I.; Vos, H.R.; Stunnenberg, H. ; van Attikum, H.; Vermeulen, M. et al. sine al.
2016, Article / Letter to editor (Cell Reports, vol. 17, iss. 3, (2016), pp. 783-798)
Sall4 controls differentiation of pluripotent cells independently of the Nucleosome Remodelling and Deacetylation (NuRD) complex
Miller, A.; Ralser, M.; Kloet, S.L.; Loos, R.; Nishinakamura, R.; Bertone, P.; Vermeulen, M. ; Hendrich, B.
2016, Article / Letter to editor (Development, vol. 143, iss. 17, (2016), pp. 3074-3084)
Characterizing Protein-Protein Interactions Using Mass Spectrometry: Challenges and Opportunities
Smits, A.H.; Vermeulen, M.
2016, Article / Letter to editor (Trends in Biotechnology, vol. 34, iss. 10, (2016), pp. 825-834)

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