Publications

Highlighted publications

Vlaming, H., Mimoso, C. A., Field, A. R., Martin, B. J. E., & Adelman, K. (2022). Screening thousands of transcribed coding and non-coding regions reveals sequence determinants of RNA polymerase II elongation potential. Nature Structural and Molecular Biology, 29(6). https://doi.org/10.1038/s41594-022-00785-9

The work described in this paper has been foundational to our lab: the development of the INSERT-seq methodology and the observation that the transcribed sequence is a key contributor to RNAPII elongation potential.

This paper can be freely accessed through PubMed Central.

Full publication list

2022

Kwesi-Maliepaard, E. M., Malik, M., Welsem, T. V., Doorn, R. V., Vermeer, M. H., Vlaming, H., Jacobs, H., & van Leeuwen, F. (2022). DOT1L inhibition does not modify the sensitivity of cutaneous T cell lymphoma to pan-HDAC inhibitors in vitro. Frontiers in Genetics, 13. https://doi.org/10.3389/fgene.2022.1032958

Vlaming, H., Mimoso, C. A., Field, A. R., Martin, B. J. E., & Adelman, K. (2022). Screening thousands of transcribed coding and non-coding regions reveals sequence determinants of RNA polymerase II elongation potential. Nature Structural and Molecular Biology, 29(6). https://doi.org/10.1038/s41594-022-00785-9

2021

Kollenstart, L., van der Horst, S. C., Vreeken, K., Janssen, G. M. C., Martino, F., Vlaming, H., van Veelen, P. A., van Leeuwen, F., & van Attikum, H. (2021). Epigenetics Identifier screens reveal regulators of chromatin acylation and limited specificity of acylation antibodies. Scientific Reports, 11(1). https://doi.org/10.1038/s41598-021-91359-0

Cucinotta, C. E.*, Martin, B. J. E.*, González, M. N.*, Raman, P.*, Teif, V. B.*, & Vlaming, H.* (2021). Strength is in engagement: The rise of an online scientific community during the COVID‐19 pandemic. EMBO Reports, 22(5). https://doi.org/10.15252/embr.202152612

2020

Kwesi-Maliepaard, E. M., Aslam, M. A., Alemdehy, M. F., Brand, T. V. D., McLean, C., Vlaming, H., Welsem, T. V., Korthout, T., Lancini, C., Hendriks, S., Ahrends, T., Dinther, D. V., Haan, J. M. M. D., Borst, J., Wit, E. D., van Leeuwen, F., & Jacobs, H. (2020). The histone methyltransferase DOT1L prevents antigen-independent differentiation and safeguards epigenetic identity of CD8 + T cells. Proceedings of the National Academy of Sciences, 117(34). https://doi.org/10.1073/pnas.1920372117

2019

Vlaming, H.*, McLean, C. M.*, Korthout, T., Alemdehy, M. F., Hendriks, S., Lancini, C., Palit, S., Klarenbeek, S., Kwesi‐Maliepaard, E. M., Molenaar, T. M., Hoekman, L., Schmidlin, T. T., Altelaar, M., Welsem, T., Dannenberg, JH., Jacobs, H., & van Leeuwen, F. (2019). Conserved crosstalk between histone deacetylation and H3K79 methylation generates DOT1L‐dose dependency in HDAC1‐deficient thymic lymphoma. EMBO Journal, 38(14). https://doi.org/10.15252/embj.2019101564

2018

van Welsem, T., Korthout, T., Ekkebus, R., Morais, D., Molenaar, T. M., Van Harten, K., Poramba-Liyanage, D., Sun, S. M., Lenstra, T. L., Srivas, R., Ideker, T., Holstege, F. C. P., van Attikum, H., El Oualid, F., Ovaa, H., Stulemeijer, I. J. E., Vlaming, H., & van Leeuwen, F. (2018). Dot1 promotes H2B ubiquitination by a methyltransferase-independent mechanism. Nucleic Acids Research, 46(21). https://doi.org/10.1093/nar/gky801

2017

De Vos, D., Vlaming, H., Bakker, B. M., & van Leeuwen, F. (2017). Modeling Distributive Histone Modification by Dot1 Methyltransferases: From Mechanism to Biological Insights. In Epigenetics and Systems Biology Elsevier. https://doi.org/10.1016/B978-0-12-803075-2.00006-4

2016

Vlaming, H., & van Leeuwen, F. (2016). The upstreams and downstreams of H3K79 methylation by DOT1L. Chromosoma, 125(4).

Vlaming, H., Molenaar, T., van Welsem, T., Poramba-Liyanage, D., Smith, D., Velds, A., Hoekman, L., Korthout, T., Hendriks, S., Altelaar, A. F. M., & van Leeuwen, F. (2016). Direct screening for chromatin status on DNA barcodes in yeast delineates the regulome of H3K79 methylation by Dot1. eLife, 5(e18919), 1-22. https://doi.org/10.7554/eLife.18919

2015

Zimberlin, CD., Lancini, C., Sno, R., Rosekrans, SL., McLean, CM., Vlaming, H., van, D. B. GR., Bots, M., Medema, JP., Medema, J. P., & Dannenberg, JH. (2015). HDAC1 and HDAC2 collectively regulate intestinal stem cell homeostasis. FASEB Journal, 29(5). https://doi.org/10.1096/fj.14-257931

Hustedt, N., Seeber, A., Sack, R., Tsai-Pflugfelder, M., Bhullar, B., Vlaming, H., van Leeuwen, F., Guénolé, A., van Attikum, H., Srivas, R., Ideker, T., Shimada, K., & Gasser, S. M. (2015). Yeast PP4 interacts with ATR homolog Ddc2-Mec1 and regulates checkpoint signaling. Molecular Cell, 57(2). https://doi.org/10.1016/j.molcel.2014.11.016

Stulemeijer, I. J. E., De Vos, D., Van Harten, K., Joshi, O. K., Blomberg, O., Van Welsem, T., Terweij, M., Vlaming, H., De Graaf, E. L., Altelaar, A. F. M., Bakker, B. M., & Van Leeuwen, F. (2015). Dot1 histone methyltransferases share a distributive mechanism but have highly diverged catalytic properties. Scientific Reports, 5, [9824]. https://doi.org/10.1038/srep09824

2014

Vlaming, H., van Welsem, T., de Graaf, E. L., Ontoso, D., Altelaar, A. F. M., San-Segundo, P. A., Heck, A. J. R., & van Leeuwen, F. (2014). Flexibility in crosstalk between H2B ubiquitination and H3 methylation in vivo. EMBO Reports, 15(10), 1077-84. https://doi.org/10.15252/embr.201438793

2012

Vlaming, H., & van Leeuwen, F. (2012). Crosstalk between aging and the epigenome. Epigenomics, 4(1). https://doi.org/10.2217/epi.11.113