Publications

  1. Keating, ST, Groh, L, Thiem, K, Bekkering, S, Li, Y, Matzaraki, V et al.. Correction to: Rewiring of glucose metabolism defines trained immunity induced by oxidized low-density lipoprotein. J. Mol. Med. 2020;98 (7):1051. doi: 10.1007/s00109-020-01939-2. PubMed PMID:32529344 .
  2. Louer, EMM, Yi, G, Carmone, C, Robben, J, Stunnenberg, HG, den Hollander, AI et al.. Genes Involved in Energy Metabolism Are Differentially Expressed During the Day-Night Cycle in Murine Retinal Pigment Epithelium. Invest. Ophthalmol. Vis. Sci. 2020;61 (5):49. doi: 10.1167/iovs.61.5.49. PubMed PMID:32460311 .
  3. Keating, ST, Groh, L, Thiem, K, Bekkering, S, Li, Y, Matzaraki, V et al.. Rewiring of glucose metabolism defines trained immunity induced by oxidized low-density lipoprotein. J. Mol. Med. 2020;98 (6):819-831. doi: 10.1007/s00109-020-01915-w. PubMed PMID:32350546 PubMed Central PMC7297856.
  4. Atlasi, Y, Jafarnejad, SM, Gkogkas, CG, Vermeulen, M, Sonenberg, N, Stunnenberg, HG et al.. The translational landscape of ground state pluripotency. Nat Commun. 2020;11 (1):1617. doi: 10.1038/s41467-020-15449-9. PubMed PMID:32238817 PubMed Central PMC7113317.
  5. Bell, E, Curry, EW, Megchelenbrink, W, Jouneau, L, Brochard, V, Tomaz, RA et al.. Dynamic CpG methylation delineates subregions within super-enhancers selectively decommissioned at the exit from naive pluripotency. Nat Commun. 2020;11 (1):1112. doi: 10.1038/s41467-020-14916-7. PubMed PMID:32111830 PubMed Central PMC7048827.
  6. Louer, EMM, Günzel, D, Rosenthal, R, Carmone, C, Yi, G, Stunnenberg, HG et al.. Differential day-night expression of tight junction components in murine retinal pigment epithelium. Exp. Eye Res. 2020;193 :107985. doi: 10.1016/j.exer.2020.107985. PubMed PMID:32092287 .
  7. Ter Huurne, M, Peng, T, Yi, G, van Mierlo, G, Marks, H, Stunnenberg, HG et al.. Critical Role for P53 in Regulating the Cell Cycle of Ground State Embryonic Stem Cells. Stem Cell Reports. 2020;14 (2):175-183. doi: 10.1016/j.stemcr.2020.01.001. PubMed PMID:32004494 PubMed Central PMC7013234.
  8. Gritsenko, PG, Atlasy, N, Dieteren, CEJ, Navis, AC, Venhuizen, JH, Veelken, C et al.. p120-catenin-dependent collective brain infiltration by glioma cell networks. Nat. Cell Biol. 2020;22 (1):97-107. doi: 10.1038/s41556-019-0443-x. PubMed PMID:31907411 PubMed Central PMC6952556.
  9. Benedetti, R, Dell'Aversana, C, De Marchi, T, Rotili, D, Liu, NQ, Novakovic, B et al.. Inhibition of Histone Demethylases LSD1 and UTX Regulates ERα Signaling in Breast Cancer. Cancers (Basel). 2019;11 (12):. doi: 10.3390/cancers11122027. PubMed PMID:31888209 PubMed Central PMC6966629.
  10. Hoeijmakers, WAM, Miao, J, Schmidt, S, Toenhake, CG, Shrestha, S, Venhuizen, J et al.. Epigenetic reader complexes of the human malaria parasite, Plasmodium falciparum. Nucleic Acids Res. 2019;47 (22):11574-11588. doi: 10.1093/nar/gkz1044. PubMed PMID:31728527 PubMed Central PMC7145593.
  11. Atlasi, Y, Megchelenbrink, W, Peng, T, Habibi, E, Joshi, O, Wang, SY et al.. Publisher Correction: Epigenetic modulation of a hardwired 3D chromatin landscape in two naive states of pluripotency. Nat. Cell Biol. 2019;21 (7):911-912. doi: 10.1038/s41556-019-0341-2. PubMed PMID:31097792 .
  12. Cheung, WA, Shao, X, Morin, A, Siroux, V, Kwan, T, Ge, B et al.. Correction to: Functional variation in allelic methylomes underscores a strong genetic contribution and reveals novel epigenetic alterations in the human epigenome. Genome Biol. 2019;20 (1):89. doi: 10.1186/s13059-019-1702-7. PubMed PMID:31064398 PubMed Central PMC6503438.
  13. Atlasi, Y, Megchelenbrink, W, Peng, T, Habibi, E, Joshi, O, Wang, SY et al.. Epigenetic modulation of a hardwired 3D chromatin landscape in two naive states of pluripotency. Nat. Cell Biol. 2019;21 (5):568-578. doi: 10.1038/s41556-019-0310-9. PubMed PMID:31036938 .
  14. Del Gaudio, N, Di Costanzo, A, Liu, NQ, Conte, L, Migliaccio, A, Vermeulen, M et al.. BRD9 binds cell type-specific chromatin regions regulating leukemic cell survival via STAT5 inhibition. Cell Death Dis. 2019;10 (5):338. doi: 10.1038/s41419-019-1570-9. PubMed PMID:31000698 PubMed Central PMC6472371.
  15. Brinkman, AB, Nik-Zainal, S, Simmer, F, Rodríguez-González, FG, Smid, M, Alexandrov, LB et al.. Partially methylated domains are hypervariable in breast cancer and fuel widespread CpG island hypermethylation. Nat Commun. 2019;10 (1):1749. doi: 10.1038/s41467-019-09828-0. PubMed PMID:30988298 PubMed Central PMC6465362.
  16. Wang, C, Nanni, L, Novakovic, B, Megchelenbrink, W, Kuznetsova, T, Stunnenberg, HG et al.. Extensive epigenomic integration of the glucocorticoid response in primary human monocytes and in vitro derived macrophages. Sci Rep. 2019;9 (1):2772. doi: 10.1038/s41598-019-39395-9. PubMed PMID:30809020 PubMed Central PMC6391480.
  17. Gerlach, JP, van Buggenum, JAG, Tanis, SEJ, Hogeweg, M, Heuts, BMH, Muraro, MJ et al.. Combined quantification of intracellular (phospho-)proteins and transcriptomics from fixed single cells. Sci Rep. 2019;9 (1):1469. doi: 10.1038/s41598-018-37977-7. PubMed PMID:30728416 PubMed Central PMC6365588.
  18. Smid, M, Wilting, SM, Uhr, K, Rodríguez-González, FG, de Weerd, V, Prager-Van der Smissen, WJC et al.. The circular RNome of primary breast cancer. Genome Res. 2019;29 (3):356-366. doi: 10.1101/gr.238121.118. PubMed PMID:30692147 PubMed Central PMC6396421.
  19. Yi, G, Wierenga, ATJ, Petraglia, F, Narang, P, Janssen-Megens, EM, Mandoli, A et al.. Chromatin-Based Classification of Genetically Heterogeneous AMLs into Two Distinct Subtypes with Diverse Stemness Phenotypes. Cell Rep. 2019;26 (4):1059-1069.e6. doi: 10.1016/j.celrep.2018.12.098. PubMed PMID:30673601 PubMed Central PMC6363099.
  20. Nik-Zainal, S, Davies, H, Staaf, J, Ramakrishna, M, Glodzik, D, Zou, X et al.. Author Correction: Landscape of somatic mutations in 560 breast cancer whole-genome sequences. Nature. 2019;566 (7742):E1. doi: 10.1038/s41586-019-0883-2. PubMed PMID:30659290 .
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