Jacob, J., van Loosen, Q. C., van den Berg van Saparoea, A. C. H., Sarno, F., & Verschure, P. J. (2024). Bridging bioengineering and epigenetics: from technical innovations to clinical applications. Epigenetics Communications, 4, Article 8. https://doi.org/10.1186/s43682-024-00031-x[details]
Koncz, M., Lermo Jimenez, M. A., Piebes, D. G. E., Postma, M., & Verschure, P. J. (2024). Single-Molecule Analysis of Transcription Dynamics to Understand the Relationship Between Epigenetic Alterations and Transcriptional Variability. In A. Jeltsch, & M. G. Rots (Eds.), Epigenome Editing: Methods and Protocols (2nd ed., pp. 449-460). (Methods in molecular biology; Vol. 2842). Humana Press. https://doi.org/10.1007/978-1-0716-4051-7_23[details]
Sarno, F., Koncz, M., Eilers, R. E., Verschure, P. J., & Rots, M. G. (2024). Generation of Cell Lines Stably Expressing a dCas9-Fusion or sgRNA to Address Dynamics of Long-Term Effects of Epigenetic Editing. In A. Jeltsch, & M. G. Rots (Eds.), Epigenome Editing: Methods and Protocols (2nd ed., pp. 289-307). (Methods in molecular biology; Vol. 2842). Humana Press. https://doi.org/10.1007/978-1-0716-4051-7_15[details]
van den Berg van Saparoea, A. C. H., van Loosen, Q. C., Sarno, F., Ntini, E., Rots, M. G., Gjaltema, R. A. F., & Verschure, P. J. (2024). Plasmid Delivery and Single-Cell Plasmid Expression Analysis for CRISPR/dCas9-Based Epigenetic Editing. In A. Jeltsch, & M. G. Rots (Eds.), Epigenome Editing: Methods and Protocols (2nd ed., pp. 255-265). (Methods in molecular biology; Vol. 2842). Humana Press. https://doi.org/10.1007/978-1-0716-4051-7_13[details]
2023
Sarno, F., Goubert, D., Logie, E., Rutten, M. G. S., Koncz, M., Deben, C., Niemarkt, A. E., Altucci, L., Verschure, P. J., Kiss, A., vanden Berghe, W., & Rots, M. G. (2023). Functional Validation of the Putative Oncogenic Activity of PLAU. Biomedicines, 11(1), Article 102. https://doi.org/10.3390/biomedicines11010102[details]
Borgoni, S., Sofyali, E., Soleimani, M., Wilhelm, H., Müller-Decker, K., Will, R., Noronha, A., Beumers, L., Verschure, P. J., Yarden, Y., Magnani, L., van Kampen, A. H. C., Moerland, P. D., & Wiemann, S. (2020). Time-Resolved Profiling Reveals ATF3 as a Novel Mediator of Endocrine Resistance in Breast Cancer. Cancers, 12(10), Article 2918. https://doi.org/10.3390/cancers12102918[details]
Gjaltema, R. A. F., Goubert, D., Huisman, C., Del Pilar García Tobilla, C., Koncz, M., Jellema, P. G., Wu, D., Brouwer, U., Kiss, A., Verschure, P. J., Bank, R. A., & Rots, M. G. (2020). KRAB-Induced Heterochromatin Effectively Silences PLOD2 Gene Expression in Somatic Cells and is Resilient to TGFβ1 Activation. International Journal of Molecular Sciences, 21(10), Article 3634. https://doi.org/10.3390/ijms21103634[details]
Mandemaker, I. K., Zhou, D., Bruens, S. T., Dekkers, D. H., Verschure, P. J., Edupuganti, R. R., Meshorer, E., Demmers, J. A. A., & Marteijn, J. A. (2020). Histone H1 eviction by the histone chaperone SET reduces cell survival following DNA damage. Journal of Cell Science, 133, Article jcs235473. Advance online publication. https://doi.org/10.1242/jcs.235473[details]
Soleimani Dodaran, M., Borgoni, S., Sofyali, E., Verschure, P. J., Wiemann, S., Moerland, P. D., & van Kampen, A. H. C. (2020). Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2-breast cancer. BMC Cancer, 20, Article 676. https://doi.org/10.1186/s12885-020-07100-z[details]
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. (2020). Additional file 8 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673833.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. (2020). Additional file 7 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673830.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. (2020). Additional file 4 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673821.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 3 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673818.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 14 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673806.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 2 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673815.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 10 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673794.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 13 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673803.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 1 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673812.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 3 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673818.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 14 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673806.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 2 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673815.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 10 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673794.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. (2020). Additional file 8 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673833.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 13 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673803.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 1 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673812.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. (2020). Additional file 4 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673821.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. (2020). Additional file 7 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673830.v1
Soleimani Dodaran, M., Borgoni, S., Sofyall, E., Verschure, P. J., Wiemann, S., Moerland, P. D. & Van Kampen, A. H. C. (2020). Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Springer Nature. https://doi.org/10.6084/m9.figshare.c.5067306.v1
2018
Beckman, W., Vuist, I. M., Kempe, H., & Verschure, P. J. (2018). Cell-to-Cell Transcription Variability as Measured by Single-Molecule RNA FISH to Detect Epigenetic State Switching. In A. Jeltsch, & M. G. Rots (Eds.), Epigenome Editing: Methods and Protocols (pp. 385-393). (Methods in Molecular Biology). Humana Press. https://doi.org/10.1007/978-1-4939-7774-1_21[details]
Naue, J., Hoefsloot, H. C. J., Kloosterman, A. D., & Verschure, P. J. (2018). Forensic DNA methylation profiling from minimal traces: How low can we go? Forensic Science International. Genetics, 33, 17-23. https://doi.org/10.1016/j.fsigen.2017.11.004[details]
Naue, J., Sänger, T., Hoefsloot, H. C. J., Lutz-Bonengel, S., Kloosterman, A. D., & Verschure, P. J. (2018). Proof of concept study of age-dependent DNA methylation markers across different tissues by massive parallel sequencing. Forensic Science International. Genetics, 36, 152-159. https://doi.org/10.1016/j.fsigen.2018.07.007[details]
2017
Goubert, D., Beckman, W. F., Verschure, P. J., & Rots, M. G. (2017). Epigenetic editing: towards realization of the curable genome concept. Convergent Science Physical Oncology, 3(1), Article 013006. https://doi.org/10.1088/2057-1739/aa5cc0[details]
Magnani, L., Frigè, G., Gadaleta, R. M., Corleone, G., Fabris, S., Kempe, H., Verschure, P. J., Barozzi, I., Vircillo, V., Hong, S. P., Perone, Y., Saini, M., Trumpp, A., Viale, G., Neri, A., Ali, S., Colleoni, M. A., Pruneri, G., & Minucci, S. (2017). Acquired CYP19A1 amplification is an early specific mechanism of aromatase inhibitor resistance in ERα metastatic breast cancer. Nature genetics, 49(3), 444-450. https://doi.org/10.1038/ng.3773[details]
Naue, J., Hoefsloot, H. C. J., Mook, O. R. F., Rijlaarsdam-Hoekstra, L., van der Zwalm, M. C. H., Henneman, P., Kloosterman, A. D., & Verschure, P. J. (2017). Chronological age prediction based on DNA methylation: Massive parallel sequencing and random forest regression. Forensic Science International. Genetics, 31, 19-28. https://doi.org/10.1016/j.fsigen.2017.07.015[details]
van Hagen, M., Piebes, D. G. E., de Leeuw, W. C., Vuist, I. M., van Roon-Mom, W. M. C., Moerland, P. D., & Verschure, P. J. (2017). The dynamics of early-state transcriptional changes and aggregate formation in a Huntington's disease cell model. BMC Genomics, 18(373), Article 373. https://doi.org/10.1186/s12864-017-3745-z[details]
van Hagen, M., de Leeuw, W. C., van Roon-Mom, W. M. C., Verschure, P. J., Piebes, D., Vuist, I. & Moerland, P. D. (2017). Additional file 6: of The dynamics of early-state transcriptional changes and aggregate formation in a Huntington’s disease cell model. Figshare. https://doi.org/10.6084/m9.figshare.c.3778547_d6.v1
van Hagen, M., de Leeuw, W. C., van Roon-Mom, W. M. C., Verschure, P. J., Piebes, D., Vuist, I. & Moerland, P. D. (2017). Additional file 5: of The dynamics of early-state transcriptional changes and aggregate formation in a Huntington’s disease cell model. Figshare. https://doi.org/10.6084/m9.figshare.c.3778547_d5.v1
van Hagen, M., de Leeuw, W. C., van Roon-Mom, W. M. C., Verschure, P. J., Piebes, D., Vuist, I. & Moerland, P. (2017). Additional file 4: of The dynamics of early-state transcriptional changes and aggregate formation in a Huntington’s disease cell model. Figshare. https://doi.org/10.6084/m9.figshare.c.3778547_d4.v1
van Hagen, M., de Leeuw, W. C., van Roon-Mom, W. M. C., Verschure, P. J., Piebes, D., Vuist, I. & Moerland, P. D. (2017). Additional file 2: of The dynamics of early-state transcriptional changes and aggregate formation in a Huntington's disease cell model. Figshare. https://doi.org/10.6084/m9.figshare.c.3778547_d2.v1
van Hagen, M., de Leeuw, W. C., van Roon-Mom, W. M. C., Verschure, P. J., Piebes, D., Vuist, I. & Moerland, P. D. (2017). Additional file 6: of The dynamics of early-state transcriptional changes and aggregate formation in a Huntington’s disease cell model. Figshare. https://doi.org/10.6084/m9.figshare.c.3778547_d6.v1
van Hagen, M., de Leeuw, W. C., van Roon-Mom, W. M. C., Verschure, P. J., Piebes, D., Vuist, I. & Moerland, P. D. (2017). Additional file 5: of The dynamics of early-state transcriptional changes and aggregate formation in a Huntington’s disease cell model. Figshare. https://doi.org/10.6084/m9.figshare.c.3778547_d5.v1
van Hagen, M., de Leeuw, W. C., van Roon-Mom, W. M. C., Verschure, P. J., Piebes, D., Vuist, I. & Moerland, P. (2017). Additional file 4: of The dynamics of early-state transcriptional changes and aggregate formation in a Huntington’s disease cell model. Figshare. https://doi.org/10.6084/m9.figshare.c.3778547_d4.v1
van Hagen, M., de Leeuw, W. C., van Roon-Mom, W. M. C., Verschure, P. J., Piebes, D., Vuist, I. & Moerland, P. D. (2017). Additional file 2: of The dynamics of early-state transcriptional changes and aggregate formation in a Huntington's disease cell model. Figshare. https://doi.org/10.6084/m9.figshare.c.3778547_d2.v1
2016
Hoeijmakers, L., Kempe, H., & Verschure, P. J. (2016). Epigenetic imprinting during assisted reproductive technologies: The effect of temporal and cumulative fluctuations in methionine cycling on the DNA methylation state. Molecular Reproduction and Development, 83(2), 94-107. Advance online publication. https://doi.org/10.1002/mrd.22605[details]
Wijchers, P. J., Krijger, P. H. L., Geeven, G., Zhu, Y., Denker, A., Verstegen, M. J. A. M., Valdes-Quezada, C., Vermeulen, C., Janssen, M., Teunissen, H., Anink-Groenen, L. C. M., Verschure, P. J., & de Laat, W. (2016). Cause and Consequence of Tethering a SubTAD to Different Nuclear Compartments. Molecular Cell, 61(3), 461-473. https://doi.org/10.1016/j.molcel.2016.01.001[details]
Kempe, H., Schwabe, A., Crémazy, F., Verschure, P. J., & Bruggeman, F. J. (2015). The volumes and transcript counts of single cells reveal concentration homeostasis and capture biological noise. Molecular Biology of the Cell, 26(4), 797-804. https://doi.org/10.1091/mbc.E14-08-1296[details]
Anink-Groenen, L. C. M., Maarleveld, T. R., Verschure, P. J., & Bruggeman, F. J. (2014). Mechanistic stochastic model of histone modification pattern formation. Epigenetics & Chromatin, 7, 30. https://doi.org/10.1186/1756-8935-7-30[details]
Brink, M. C., Piebes, D. G. E., de Groote, M. L., Luijsterburg, M. S., Casas-Delucchi, C. S., van Driel, R., Rots, M. G., Cardoso, M. C., & Verschure, P. J. (2013). A role for MeCP2 in switching gene activity via chromatin unfolding and HP1γ displacement. PLoS ONE, 8(7), e69347. https://doi.org/10.1371/journal.pone.0069347[details]
Muraro, M. J., Kempe, H., & Verschure, P. J. (2013). Concise Review: The Dynamics of Induced Pluripotency and Its Behavior Captured in Gene Network Motifs. Stem Cells, 31(5), 838-848. Advance online publication. https://doi.org/10.1002/stem.1340[details]
de Groote, M. L., Verschure, P. J., & Rots, M. G. (2012). Epigenetic Editing: targeted rewriting of epigenetic marks to modulate expression of selected target genes. Nucleic Acids Research, 40(21), 10596-10613. https://doi.org/10.1093/nar/gks863[details]
Schwabe, A., Dobrzynski, M., Rybakova, E., Verschure, P. J., & Bruggeman, F. J. (2011). Origins of stochastic intracellular processes and consequences for cell-to-cell variability and cellular survival strategies. Methods in Enzymology, 500, 597-625. https://doi.org/10.1016/B978-0-12-385118-5.00028-1[details]
2010
Scassellati, C., Albi, E., Cmarko, D., Tiberi, C., Cmarkova, J., Bouchet‑Marquis, C., Verschure, P. J., van Driel, R., Viola Magni, M., & Fakan, S. (2010). Intranuclear sphingomyelin is associated with transcriptionally active chromatin and plays a role in nuclear integrity. Biology of the Cell, 102(6), 361-375. https://doi.org/10.1042/BC20090139[details]
2009
Luijsterburg, M. S., Dinant, C., Lans, H., Stap, J., Wiernasz, E. S., Lagerwerf, S., Warmerdam, D. O., Lindh, M., Brink, M. C., Dobrucki, J. W., Aten, J. A., Fousteri, M. I., Jansen, G., Dantuma, N. P., Vermeulen, W., Mullenders, L. H. F., Houtsmuller, A. B., Verschure, P. J., & van Driel, R. (2009). Heterochromatin protein 1 is recruited to various types of DNA damage. Journal of Cell Biology, 185(4), 577-586. https://doi.org/10.1083/jcb.200810035[details]
Mateos-Langerak, J., Bohn, M., de Leeuw, W., Giromus, O., Manders, E. M. M., Verschure, P. J., Indemans, M. H. G., Gierman, H. J., Heermann, D. W., van Driel, R., & Goetze, S. (2009). Spatially confined folding of chromatin in the interphase nucleus. Proceedings of the National Academy of Sciences of the United States of America, 106(10), 3812-3817. https://doi.org/10.1073/pnas.0809501106[details]
2007
Mateos Langerak, J., Brink, M. C., Luijsterburg, M. S., van der Kraan, I., van Driel, R., & Verschure, P. J. (2007). Pericentromeric heterochromatin domains are maintained without accumulation of HP1. Molecular Biology of the Cell, 18(4), 1464-1471. https://doi.org/10.1091/mbc.E06-01-0025[details]
van Royen, M. E., Cunha, S. M., Brink, M. C., Mattern, K. A., Nigg, A. L., Dubbink, H. J., Verschure, P. J., Trapman, J., & Houtsmuller, A. B. (2007). Compartmentalization of androgen receptor protein-protein interactions in living cells. Journal of Cell Biology, 177(1), 63-72. https://doi.org/10.1083/jcb.200609178[details]
2006
Brink, M. C., van der Velden, Y., de Leeuw, W., Mateos Langerak, J., Belmont, A. S., van Driel, R., & Verschure, P. J. (2006). Truncated HP1 lacking a functional chromodomain induces heterochromatinization upon in vivo targeting. Histochemistry and Cell Biology, 125, 53-61. https://doi.org/10.1007/s00418-005-0088-7[details]
Verschure, P. J. (2006). Chromosome organization and gene control: It is difficult to see the picture when you are inside the frame. Journal of Cellular Biochemistry, 99(1), 23-34. [details]
Verschure, P. J., Visser, A. E., & Rots, M. G. (2006). Step out of the groove: epigenetic gene control systems and engineered transcription factors. Advances in Genetics Incorporating Molecular Genetic Medicine, 56, 163-204. https://doi.org/10.1016/S0065-2660(06)56005-5[details]
Visser, A. E., Verschure, P. J., Gommans, W. M., Haisma, H. J., & Rots, M. G. (2006). Step into the groove: engineered transcription factors as modulators of gene expression. Advances in Genetics Incorporating Molecular Genetic Medicine, 56, 131-161. https://doi.org/10.1016/S0065-2660(06)56004-3[details]
de Leeuw, W., Verschure, P. J., & van Liere, R. (2006). Visualization and analysis of large data collections: a case study applied to confocal microscopy data. IEEE Transactions on visualization and computer graphics, 12 (5). [details]
2005
Cremazy, F. G. E., Manders, E. M. M., Bastiaens, P. I. H., Kramer, G., Hager, G. L., van Munster, E. B., Verschure, P. J., Gadella, T. W. J., & van Driel, R. (2005). Imaging in situ protein-DNA interactions in the cell nucleus using FRET-FLIM. Experimental Cell Research, 309, 390-396. https://doi.org/10.1016/j.yexcr.2005.06.007[details]
Verschure, P. J., van der Kraan, K., de Leeuw, W., van der Vlag, J., Carpenter, A. E., Belmont, A. S., & van Driel, R. (2005). In vivo HP1 targeting causes large-scale chromatin condensation and enhanced histone lysine methylation. Molecular and Cellular Biology, 25, 4552-4564. https://doi.org/10.1128/MCB.25.11.4552-4564.2005[details]
Visser, A. E., van Driel, R., & Verschure, P. J. (2005). Functional organization of chromosomes in the interphase cell nucleus. In P. Hemmerich, & S. Diekmann (Eds.), Visions of the cell nucleus. (pp. 19-36). Los Angeles, CA. USA: American Scientific Publ.. [details]
Cmarko, D., Verschure, P. J., Otte, A. P., van Driel, R., & Fakan, S. (2003). Polycomb group gene silencing proteins are concentrated in the perichromatin compartment of the mammalian nucleus. Journal of Cell Science, 116, 335-343. https://doi.org/10.1242/jcs.00225[details]
Verschure, P. J., van der Kraan, K., Manders, E. M. M., Hoogstraten, D., Houtsmuller, A. B., & van Driel, R. (2003). Condensed chromatin domains in the mammalian nucleus are accessible to large macromolecules. EMBO Reports, 4, 861-866. https://doi.org/10.1038/sj.embor.embor922[details]
van Driel, R., Fransz, P. F., & Verschure, P. J. (2003). The eukaryotic genome: a system regulated at different hierarchical levels. Journal of Cell Science, 116, 4067-4075. https://doi.org/10.1242/jcs.00779[details]
2002
Verschure, P. J., van der Kraan, I., Enserink, J. M., Moné, M. J., Manders, E. M. M., & van Driel, R. (2002). Large-scale chromatin organization and the localization of proteins involved in gene expression in human cells. The Journal of Histochemistry and Cytochemistry, 50, 1303-1312. https://doi.org/10.1177/002215540205001003[details]
2001
Moné, M. J., Volker, M., Nikaido, O., Mullenders, L. H. F., van Zeeland, A. A., Verschure, P. J., Manders, E. M. M., & van Driel, R. (2001). Local UV induced DNA damage in cell nuclei results in local transcription inhibition. EMBO Reports, 2, 1013-1017. https://doi.org/10.1093/embo-reports/kve224[details]
2000
Cmarko, D., Verschure, P. J., Rothblum, L. I., Hernandez-Verdun, D., van Driel, R., Amalric, F., & Fakan, S. (2000). Ultrastructural analysis of nucleolar transcription in the cells microinjected with 5-bromo-UTP. Histochemistry and Cell Biology, 113, 181-187. [details]
1999
Cmarko, D., Verschure, P. J., Martin, T. E., Dahmus, M. E., Krause, S., Fu, X-D., van Driel, R., & Fakan, S. (1999). Ultrastructural analysis of transciption and splicing in the cell nucleus after BrUTP-microinjection. Molecular Biology of the Cell, 10, 211-223. https://doi.org/10.1091/mbc.10.1.211[details]
1997
Verschure, P. J., van Marle, J., van Noorden, C. J. F., & van den Berg, W. B. (1997). The contribution of quantitative confocal laser scanning microscopy in cartilage research: chondrocyte insulin-like growth factor-1 receptors in health and pathology. Microscopy Research and Technique, 37, 285-298. https://doi.org/10.1002/(SICI)1097-0029(19970515)37:4<285::AID-JEMT4>3.0.CO;2-K[details]
Sanchez-Montanes, M. A., Konig, P., & Verschure, P. J. (2002). Learning sensory maps with real-world stimuli in real time using a biophysically realistic learning rule. IEEE Transactions on Neural Networks, 13(3), 619-32. https://doi.org/10.1109/TNN.2002.1000128
Verschure, P. J. (2004). Genetisch ongelijk. Natuurwetenschap en Techniek, 27e jrg, 20-27. [details]
2010
Verschure, P. J. (2010). Epigenetic gene regulation of the eukaryotic genome: Sytems Biology approaches using synthetic cell systems. Poster session presented at The EMBO meeting Barcelona 2010, .
Prijs / subsidie
Verschure, P. J. (2010). Epigenetic gene regulation of the eukaryotic genome: Sytems Biology approaches using synthetic cell systems.
Verschure, P. J. (2006). Functional chromosome organization in the interphase nucleus:Epigenetic gene control..
Lidmaatschap / relevante positie
Verschure, P. J. (2015). Coordinator, Co van Ledden Hulsebosch Center: the interdisciplinary expertise center for forensic scientific and medical research in Amsterdam.. http://www.clhc.nl/
Verschure, P. J. (2015). member coordinating platform, The Coordinating Action Systems Medicine (CASyM) is a multidisciplinary European consortium that joins forces to develop an implementation strategy (road map) for Systems Medicine.. https://www.casym.eu/casym
Verschure, P. J. (2015). Advisory board member SYNENERGENE, Rathenau Instituut. https://www.rathenau.nl/en
Verschure, P. J. (2015). Chair of the executive board, Women in the FNWI network (WiF).
Verschure, P. J. (2015-2018). Coordinator, EU H2020 MSCA -ITN EpiPredict.
Mediaoptreden
Verschure, P. J. (01-01-2013). de toekomst van Synthetic Biology [Print] Amsterdam, the Netherlands. de toekomst van Synthetic Biology.
Verschure, P. J. (20-09-2011). The impact of synthetic biology on Science and Society [Print] Science Center Nemo, Amsterdam. The impact of synthetic biology on Science and Society.
Verschure, P. J. (08-03-2011). Member of Expert Panel 'scholierendebat' [Print] Science Center Nemo, Amsterdam. Member of Expert Panel 'scholierendebat'.
Verschure, P. J. (13-01-2011). Evaluation committee Portuguese Foundation for Science and Technology [Print]. Evaluation committee Portuguese Foundation for Science and Technology.
Verschure, P. J. (01-01-2011). NWO-meervoud evaluation committee [Print]. NWO-meervoud evaluation committee.
Tijdschriftredactie
Verschure, P. J. (editor) (2015). Frontiers in Bioengineering and Biotechnology (Journal).
Verschure, P. J. (editor) (2015). The Journal of Histochemistry and Cytochemistry (Journal).
Verschure, P. J. (editor) (2013). Frontiers in Bioengineering and Biotechnology (Journal).
Verschure, P. J. (editor) (2013-2014). The Journal of Histochemistry and Cytochemistry (Journal).
Spreker
Verschure, P. J. (speaker) (8-12-2015). Epigenetics makes us tick: Functional performance of epigenetic regulation and its impact on biomedical applications, seminar at The Department of Cell Biology and Histology, AMC, Amsterdam, the Netherlands.
Verschure, P. J. (speaker) (1-12-2015). Wetenschapper (m/v): meer genderdiversiteit op de universiteit, Spui25: In samenwerking met honoursprogramma (S)hevolution (UvA & VU), Amsterdam, the Netherlands.
Verschure, P. J. (speaker) (29-1-2015). Epigenetic clocks as perspective for individualized medicine, the BioSB research school: O2 for Personalized Medicine and Nutrition: from inspiration to aspiration, VU University Amsterdam, the Netherlands. http://www.icsb-nl.nl/
Verschure, P. J. (invited speaker) (16-12-2014). Epigenetics makes us tick: Functional performance, time-delay, memmory, cell-cell variability and robustness, Netherlands Platform for Systems Biology (SB@NL), University of Maastricht, Maastricht, the Netherlands.
Verschure, P. J. (invited speaker) (16-1-2014). Epigenetic state switching in higher eukaryotes: Engineered mammalian cell systems and stochastic modeling, Department of Cancer and Surgery; Institute of Reproductive and Developmental Biology; host Prof Bob Brown, Imperial College, Epigenetics Unit, London, UK.
Verschure, P. J. (invited speaker) (19-11-2013). Epigenetic state switching: Engineered mammalian cell systems and stochasticity, M.V.Lomonosov Moscow State University, A.N.Belozersky Institute of Physico-Chemical Biology, Guest of Prof. Igor Kireev (head of the Electron Microscopy Dept), Moscow, Russia.
Verschure, P. J. (invited speaker) (19-9-2013). The dynamics and stochastics of epigenetic state switching studied in engineered mammalian cell systems, Conference on Transposition and Genome Engineering 2013, Budapest, Hungary.
Verschure, P. J. (invited speaker) (4-9-2013). Dynamic and stochastic epigenetic state switching studied in epigenetic engineered mammalian cell systems, 19th International Chromosome Conference, Bologna, Italy.
Verschure, P. J. (invited speaker) (25-6-2013). Epigenetic state switching in higher eukaryotes: Engineered mammalian cell systems and stochastic modeling', Chemistry of Life - Engineering Biology (NBV Werkgroependag and the KNCV spring event), Radboud University Nijmegen, the Netherlands.
Verschure, P. J. (invited speaker) (1-5-2013). Epigenetic state switching in higher eukaryotes: Engineered mammalian cell systems and stochastic modeling, Paul Erlich Institute, hosted by Prof. Zoltan Ivics (Head of the division of Medical Biotechnology), Langen, Germany.
Verschure, P. J. (invited speaker) (4-9-2012). Genome Engineering: Research and Applications, FASEB Summer Research Conference, Barga, Lucca, Italy.
Verschure, P. J. (invited speaker) (10-7-2012). Design principles of epigenetic gene regulation in higher eukaryotes: Systems biology approaches using mammalian synthetic cell systems, GUIDE Graduate School for Drug Exploration, International Seminar Programme, University Medical Centre Groningen, Groningen, the Netherlands.
Verschure, P. J. (invited speaker) (2012). titel, Dept. of Biology, Technische Universitat Darmstädt seminar hosted by Prof. Cardoso, Darmstadt, Germany.
Verschure, P. J. (speaker) (25-10-2011). Design principles of epigenetic gene regulation in higher eukaryotes: Systems biology approaches, International Marie Curie network meeting, Amsterdam, the Netherlands.
Verschure, P. J. (speaker) (30-8-2011). Design principles of epigenetic gene regulation in higher eukaryotes: Systems biology approaches using mammalian synthetic cell systems, 18th International chromosome Conference, Manchester, UK.
Verschure, P. J. (speaker) (25-4-2011). Design principles of epigenetic gene regulation in higher eukaryotes: Systems biology approaches, Werkgroependag Nederlandse Biotechnologische vereniging, Ede-Wageningen, the Netherlands.
Verschure, P. J. (speaker) (14-4-2011). Design principles of epigenetic gene regulation in higher eukaryotes: Systems biology approaches, 8th International Symposium on Networks in Bioinformatics, Amsterdam, the Netherlands.
Verschure, P. J. (speaker) (14-4-2011). Wie ben ik, wat onderzoek ik, waarom is wetenschappelijk onderzoek zo interessant, Girlsday VHTO, Amsterdam, the Netherlands.
Verschure, P. J. (speaker) (24-3-2011). Design principles of epigenetic gene regulation in higher eukaryotes: Systems biology approaches using mammalian synthetic cell systems, International Seminar Programme GUIDE Graduate School for drug Exploration, University Medical Centre Groningen, Groningen, the Netherlands.
Verschure, P. J. (speaker) (2-3-2011). Epigenetic gene regulation of the eukaryotic genome: Systems biology and synthetic cell systems, 4th joint FEBS and Systems X Advanced Lecture Course, Innsbruck, Austria.
Verschure, P. J. (invited speaker) (4-10-2010). Epigenetic gene regulation of the eukaryotic genome: Sytems Biology approaches using synthetic cell systems, Annual Dutch meeting on Molecular and Cellular Biophysics (FOM), Veldhoven, the Netherlands.
Verschure, P. J. (invited speaker) (3-6-2010). Epigenetic gene regulation of the eukaryotic genome: Sytems Biology approaches using synthetic cell systems, SBMC 2010 Conference on Systems Biology of Mammalian cells, Freiburg, Germany.
Verschure, P. J. (speaker) (12-10-2009). Epigenetic gene regulation of the eukaryotic genome, 7th Dutch Chromatin Meeting: Systems Biology approaches using synthetic systems, University Medical Center Utrecht, Utrecht, the Netherlands.
Verschure, P. J. (speaker) (2-10-2009). Epigenetic gene regulation of the eukaryotic genome: Systems Biology approaches using synthetic systems, 1st Symposium on Systems Genetics: Systems Genetics: from man to microbe, from genotype to phenotype, University of Groningen, Groningen, the Netherlands.
Verschure, P. J. (speaker) (1-7-2009). Chromosome organization and epigenetic gene regulation of the eukaryotic genome., German Cancer Research Center, Division of Molecular Genome Analysis, DKFZ-Heidelberg, Germany.
Verschure, P. J. (speaker) (26-9-2008). Dysregulation of gene expression in Huntington’s disease: epigenetic control systems, Huntington’s disease PBF workshop, Naarden, the Netherlands.
Verschure, P. J. (speaker) (24-4-2008). Epigenetic gene regulation in Huntington’s disease, NIH workshop, AMC, Amsterdam, the Netherlands.
Verschure, P. J. (speaker) (10-9-2007). Chromosome organization and epignetic gene control systems., The 6th Dutch chromatin meeting., Amsterdam, the Netherlands.
Verschure, P. J. (speaker) (27-8-2007). Chromosome organization and epignetic gene control systems., The 16th International Chromosome Conference, Amsterdam, the Netherlands.
Verschure, P. J. (speaker) (16-2-2007). Chromosome organization and epigenetic gene control systems., seminar: Institute of Molecular Medicine, Faculty of Medicine, Lisbon, Portugal.
Verschure, P. J. (speaker) (15-2-2007). Functional chromosome organization in the interphase cell nucleus: Epigenetic gene control., seminar, Lisbon, Portugal, Gulbenkian Institute.
Verschure, P. J. (speaker) (22-12-2006). Chromosome organization and epigenetic gene control systems., Symposium Towards gene-specific chromatin remodeling., Groningen, the Netherlands.
Verschure, P. J. (speaker) (2-10-2006). Functional chromosome organization in the interphase nucleus: Epigenetic gene control., Symposium "Hot topics in Eukaryotic Transcription", Jagiellonian University., Krakow, Poland.
Verschure, P. J. (speaker) (7-9-2006). Functional chromosome organization in the interphase nucleus: Epigenetic gene control., Feulgen Prize awarding, 48th Symposium of the Society for Histochemistry., Stresa, Italy.
Verschure, P. J. (speaker) (15-11-2005). Dysregulation of gene expression in Huntington's disease by epigenetic control systems., Seminar, Dept. of Cell Biology and Histology, Academic Medical Center, UvA., Amsterdam , The Netherlands.
Verschure, P. J. (speaker) (18-2-2005). Epigenetic gene control and nuclear positioning, Therapeutic gene modulation., Meeting Drug Exploration, University Groningen, Groningen, The Netherlands.
Verschure, P. J. (speaker) (22-9-2004). Chromosome organization and gene regulation of the eukaryotic genomen., The 46th Symp. of the Society for Histochemistry, Prague, Czech.
Verschure, P. J. (speaker) (5-9-2004). Large-scale chromatin organization and gene gene expression., The 15th Int. Chromosome Conference., London, UK.
Andere
Verschure, P. J. (organiser) (6-3-2015). kick off meeting, UvA, UB, Amsterdam. EU H2020 MSCA-ITN EpiPredict (organising a conference, workshop, ...).
Verschure, P. J. (other) (2014). Ambassador, Faculty of Science, University of Amsterdam (other).
Verschure, P. J. (other) (2014). Executive board member, Dutch Huntington Disease Network Symposium, 23-05-2014 (other).
Verschure, P. J. (other) (2014). Member of committee, NWO-ALW ViDi (other).
Verschure, P. J. (other) (2014). Advisory board member, Rathenau Institute (EU SYNERNERGENE project) (other).
Verschure, P. J. (other) (2013 - 2014). member of the committee, NWO-ALW 'Investeringen Middelgroot (other).
Verschure, P. J. (other) (2013 - 2014). Chief of the executive board, Women in the Faculty (WiF) network (other).
Verschure, P. J. (other) (2012). organizing commiittee member, iGEM EU Regional Meeting (other).
Verschure, P. J. (other) (2012). Judge, iGEM competition 2012 (other).
Verschure, P. J. (other) (2012). organizing committee member, WiF Annual Meeting 2012 (other).
Verschure, P. J. (other) (2012). member, NWO-Meervoud Evaluation Committee (other).
Verschure, P. J. (other) (2012). organizing committee member, NISB annual meeting 2012 (other).
Verschure, P. J. (other) (2012). member, NWO-STW Evaluation Committee (other).
Fransz, P. F. (other), Stam, M. E. (other) & Verschure, P. J. (other) (2012). organizing committee, 10th Dutch Chromatin Meeting 2012 (other).
Verschure, P. J. (other) (2011). Executive Board member Women in the Faculty (WiF), UvA FNWI (other).
Verschure, P. J. (participant) (9-12-2010). Organization of Mini-symposium (SILS-NISB), Amsterdam, the Netherlands. Mammalian Synthetic Biology from tools to therapies (participating in a conference, workshop, ...).
Verschure, P. J. (other) (2010). Executive Board member, Women in the Faculty (WiF) (other).
2021
Beckman, W. F. (2021). The role of epigenetics in transcriptional stochasticity and the implications for breast cancer drug resistance. [Thesis, fully internal, Universiteit van Amsterdam]. [details]
Kempe, H. (2017). Understanding gene expression variability in its biological context using theoretical and experimental analyses of single cells. [Thesis, fully internal, Universiteit van Amsterdam]. [details]
Piebes, D. G. E. (2016). Transcription regulation in time and space: Engineered cell systems to modulate the epigenetic chromatin structure: The role of Methyl-CpG-binding protein 2. [Thesis, fully internal, Universiteit van Amsterdam]. [details]
Schwabe, A. (2014). Non-genetic cell-to-cell variability: theory and experiments. [Thesis, internally prepared, Vrije Universiteit Amsterdam]. Amsterdam Institute for Molecules, Medicines and Systems.
2013
de Groote, M. L. (2013). Potentials and pitfalls of epigenetic editing in gene-specific re-expression of epigenetically silenced genes. [Thesis, fully external, Rijksuniversiteit Groningen]. University Library Groningen.
2009
Brink, M. C. (2009). Chromatin architecture and the orchestration of gene expression: cell systems to explore epigenetic gene control. [Thesis, fully internal, Universiteit van Amsterdam]. [details]
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 2 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673815.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 14 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673806.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 1 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673812.v1
Soleimani Dodaran, M., Borgoni, S., Sofyall, E., Verschure, P. J., Wiemann, S., Moerland, P. D. & Van Kampen, A. H. C. (2020). Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Springer Nature. https://doi.org/10.6084/m9.figshare.c.5067306.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 10 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673794.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 3 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673818.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. D. (2020). Additional file 13 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673803.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. (2020). Additional file 4 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673821.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. (2020). Additional file 8 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673833.v1
Soleimani Dodaran, M., Sofyall, E., Verschure, P. J., Van Kampen, A. H. C., Borgoni, S., Wiemann, S. & Moerland, P. (2020). Additional file 7 of Candidate methylation sites associated with endocrine therapy resistance in ER+/HER2- breast cancer. Figshare. https://doi.org/10.6084/m9.figshare.12673830.v1
2017
van Hagen, M., de Leeuw, W. C., van Roon-Mom, W. M. C., Verschure, P. J., Piebes, D., Vuist, I. & Moerland, P. D. (2017). Additional file 5: of The dynamics of early-state transcriptional changes and aggregate formation in a Huntington’s disease cell model. Figshare. https://doi.org/10.6084/m9.figshare.c.3778547_d5.v1
van Hagen, M., de Leeuw, W. C., van Roon-Mom, W. M. C., Verschure, P. J., Piebes, D., Vuist, I. & Moerland, P. D. (2017). Additional file 2: of The dynamics of early-state transcriptional changes and aggregate formation in a Huntington's disease cell model. Figshare. https://doi.org/10.6084/m9.figshare.c.3778547_d2.v1
van Hagen, M., de Leeuw, W. C., van Roon-Mom, W. M. C., Verschure, P. J., Piebes, D., Vuist, I. & Moerland, P. D. (2017). Additional file 6: of The dynamics of early-state transcriptional changes and aggregate formation in a Huntington’s disease cell model. Figshare. https://doi.org/10.6084/m9.figshare.c.3778547_d6.v1
van Hagen, M., de Leeuw, W. C., van Roon-Mom, W. M. C., Verschure, P. J., Piebes, D., Vuist, I. & Moerland, P. (2017). Additional file 4: of The dynamics of early-state transcriptional changes and aggregate formation in a Huntington’s disease cell model. Figshare. https://doi.org/10.6084/m9.figshare.c.3778547_d4.v1
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