Publications

  1. Kebede, AF, Nieborak, A, Shahidian, LZ, Le Gras, S, Richter, F, Gómez, DA et al.. Histone propionylation is a mark of active chromatin. Nat. Struct. Mol. Biol. 2017; :. doi: 10.1038/nsmb.3490. PubMed PMID:29058708 .
  2. Kole, K, Lindeboom, RGH, Baltissen, MPA, Jansen, PWTC, Vermeulen, M, Tiesinga, P et al.. Proteomic landscape of the primary somatosensory cortex upon sensory deprivation. Gigascience. 2017;6 (10):1-10. doi: 10.1093/gigascience/gix082. PubMed PMID:29020746 PubMed Central PMC5632293.
  3. Edupuganti, RR, Geiger, S, Lindeboom, RGH, Shi, H, Hsu, PJ, Lu, Z et al.. N(6)-methyladenosine (m(6)A) recruits and repels proteins to regulate mRNA homeostasis. Nat. Struct. Mol. Biol. 2017;24 (10):870-878. doi: 10.1038/nsmb.3462. PubMed PMID:28869609 .
  4. Krishnan, S, Smits, AH, Vermeulen, M, Reinberg, D. Phospho-H1 Decorates the Inter-chromatid Axis and Is Evicted along with Shugoshin by SET during Mitosis. Mol. Cell. 2017;67 (4):579-593.e6. doi: 10.1016/j.molcel.2017.07.008. PubMed PMID:28781233 PubMed Central PMC5562512.
  5. Choi, J, Xu, M, Makowski, MM, Zhang, T, Law, MH, Kovacs, MA et al.. A common intronic variant of PARP1 confers melanoma risk and mediates melanocyte growth via regulation of MITF. Nat. Genet. 2017;49 (9):1326-1335. doi: 10.1038/ng.3927. PubMed PMID:28759004 .
  6. Fang, J, Jia, J, Makowski, M, Xu, M, Wang, Z, Zhang, T et al.. Functional characterization of a multi-cancer risk locus on chr5p15.33 reveals regulation of TERT by ZNF148. Nat Commun. 2017;8 :15034. doi: 10.1038/ncomms15034. PubMed PMID:28447668 PubMed Central PMC5414179.
  7. Zhang, X, Smits, AH, van Tilburg, GB, Jansen, PW, Makowski, MM, Ovaa, H et al.. An Interaction Landscape of Ubiquitin Signaling. Mol. Cell. 2017;65 (5):941-955.e8. doi: 10.1016/j.molcel.2017.01.004. PubMed PMID:28190767 .
  8. Zhang, T, Xu, M, Makowski, MM, Lee, C, Kovacs, M, Fang, J et al.. SDHD Promoter Mutations Ablate GABP Transcription Factor Binding in Melanoma. Cancer Res. 2017;77 (7):1649-1661. doi: 10.1158/0008-5472.CAN-16-0919. PubMed PMID:28108517 .
  9. Smits, AH, Borrmann, A, Roosjen, M, van Hest, JC, Vermeulen, M. Click-MS: Tagless Protein Enrichment Using Bioorthogonal Chemistry for Quantitative Proteomics. ACS Chem. Biol. 2016;11 (12):3245-3250. doi: 10.1021/acschembio.6b00520. PubMed PMID:27643597 .
  10. Spruijt, CG, Luijsterburg, MS, Menafra, R, Lindeboom, RG, Jansen, PW, Edupuganti, RR et al.. ZMYND8 Co-localizes with NuRD on Target Genes and Regulates Poly(ADP-Ribose)-Dependent Recruitment of GATAD2A/NuRD to Sites of DNA Damage. Cell Rep. 2016;17 (3):783-798. doi: 10.1016/j.celrep.2016.09.037. PubMed PMID:27732854 .
  11. Miller, A, Ralser, M, Kloet, SL, Loos, R, Nishinakamura, R, Bertone, P et al.. Sall4 controls differentiation of pluripotent cells independently of the Nucleosome Remodelling and Deacetylation (NuRD) complex. Development. 2016;143 (17):3074-84. doi: 10.1242/dev.139113. PubMed PMID:27471257 PubMed Central PMC5047675.
  12. Kloet, SL, Makowski, MM, Baymaz, HI, van Voorthuijsen, L, Karemaker, ID, Santanach, A et al.. The dynamic interactome and genomic targets of Polycomb complexes during stem-cell differentiation. Nat. Struct. Mol. Biol. 2016;23 (7):682-690. doi: 10.1038/nsmb.3248. PubMed PMID:27294783 PubMed Central PMC4939079.
  13. Smits, AH, Vermeulen, M. Characterizing Protein-Protein Interactions Using Mass Spectrometry: Challenges and Opportunities. Trends Biotechnol. 2016;34 (10):825-34. doi: 10.1016/j.tibtech.2016.02.014. PubMed PMID:26996615 .
  14. Bogdanović, O, Smits, AH, de la Calle Mustienes, E, Tena, JJ, Ford, E, Williams, R et al.. Active DNA demethylation at enhancers during the vertebrate phylotypic period. Nat. Genet. 2016;48 (4):417-26. doi: 10.1038/ng.3522. PubMed PMID:26928226 .
  15. Varier, RA, Carrillo de Santa Pau, E, van der Groep, P, Lindeboom, RG, Matarese, F, Mensinga, A et al.. Recruitment of the Mammalian Histone-modifying EMSY Complex to Target Genes Is Regulated by ZNF131. J. Biol. Chem. 2016;291 (14):7313-24. doi: 10.1074/jbc.M115.701227. PubMed PMID:26841866 PubMed Central PMC4817164.
  16. Karemaker, ID, Vermeulen, M. In need of good neighbours: transcription factors require local DNA hypomethylation for target binding. EMBO J. 2016;35 (4):374-5. doi: 10.15252/embj.201593750. PubMed PMID:26758545 PubMed Central PMC4755117.
  17. Makowski, MM, Willems, E, Jansen, PW, Vermeulen, M. Cross-linking immunoprecipitation-MS (xIP-MS): Topological Analysis of Chromatin-associated Protein Complexes Using Single Affinity Purification. Mol. Cell Proteomics. 2016;15 (3):854-65. doi: 10.1074/mcp.M115.053082. PubMed PMID:26560067 PubMed Central PMC4813705.
  18. Makowski, MM, Willems, E, Fang, J, Choi, J, Zhang, T, Jansen, PW et al.. An interaction proteomics survey of transcription factor binding at recurrent TERT promoter mutations. Proteomics. 2016;16 (3):417-26. doi: 10.1002/pmic.201500327. PubMed PMID:26553150 .
  19. Campos, EI, Smits, AH, Kang, YH, Landry, S, Escobar, TM, Nayak, S et al.. Analysis of the Histone H3.1 Interactome: A Suitable Chaperone for the Right Event. Mol. Cell. 2015;60 (4):697-709. doi: 10.1016/j.molcel.2015.08.005. PubMed PMID:26527279 PubMed Central PMC4656108.
  20. Baymaz, HI, Karemaker, ID, Vermeulen, M. Perspective on unraveling the versatility of 'co-repressor' complexes. Biochim. Biophys. Acta. 2015;1849 (8):1051-6. doi: 10.1016/j.bbagrm.2015.06.012. PubMed PMID:26130598 .
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