Publications Quantitative Developmental Biology

Latest Publications

  • R.N.U. Kok, S.J. Tans and J.S. van Zon, Minimizing cell number fluctuations in self-renewing tissues with a stem-cell niche, Phys. Rev. E 108, (6), 064403: 1-11 (2023)

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  • S. Baglamis, V.M. Sheraton, D. Meijer, H. Qian, R.A. Hoebe, K.J. Lenos, M.A. Betjes, S.J. Tans, J.S. van Zon, L. Vermeulen and P.M. Krawczyk, Using picoliter droplet deposition to track clonal competition in adherent and organoid cancer cell cultures, Sci. Rep. 13, (1), 18832: 1-13 (2023)

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  • X. Zheng, M.A. Betjes, P. Ender, Y.J. Goos, G. Huelsz-Prince, H. Clevers, J.S. van Zon and S.J. Tans, Organoid cell fate dynamics in space and time, Sci. Adv. 9, (33), eadd6480: 1-13 (2023)

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  • X. Zheng, Tracking organoid cell fate dynamics in space and time, Delft University of Technology, 2023-06-06

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  • G. Huelsz-Prince, R.N.U. Kok, Y.J. Goos, L. Bruens, X. Zheng, S. Ellenbroek, J. Van Rheenen, S.J. Tans and J.S. van Zon, Mother cells control daughter cell proliferation in intestinal organoids to minimize proliferation fluctuations, eLife 11, e80682: 1-21 (2022)

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  • G.-W. He, L. Lin, J. DeMartino, X. Zheng, N. Staliarova, T. Dayton, H. Begthel, W.J. van de Wetering, E. Bodewes, J.S. van Zon, S.J. Tans, C. Lopez-Iglesias, P.J. Peters, W. Wu, D. Kotlarz, C. Klein, T. Margaritis, F. Holstege and H. Clevers, Optimized human intestinal organoid model reveals interleukin-22-dependency of paneth cell formation, Cell Stem Cell 29, (9), 1333-1345.e6 (2022)

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  • O. Filina, B. Demirbas, R. Haagmans and J.S. van Zon, Reply to Zhang et al.: The critical temperature dependence of developmental rates is in search of a mechanism, PNAS 119, (26), e2206338119: 1-1 (2022)

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  • O. Filina, B. Demirbas, R. Haagmans and J.S. van Zon, Temporal scaling in C. elegans larval development, PNAS 119, (11) (2022)

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  • J.J.H. Traets, S.N. van der Burght, S. Rademakers, G. Jansen and J.S. van Zon, Mechanism of life-long maintenance of neuron identity despite molecular fluctuations, eLife 10, e66955: 1-28 (2021)

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  • M.A. Betjes, X. Zheng, R.N.U. Kok, J.S. van Zon and S.J. Tans, Cell Tracking for Organoids: Lessons From Developmental Biology, Front. Cell Dev. Biol. 9, 675013: 1-7 (2021)

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DEVELOPMENTAL BIOLOGY

Cells change their sensitivity to an EGF morphogen gradient to control EGF-induced gene expression
J.S. van Zon, S. Kienle, G. Huelsz-Prince, M. Barkoulas, A. van Oudenaarden
Nature Communications 6:8053 (2015)

Microfabricated Polyacrylamide Devices for the Controlled Culture of Growing Cells and Developing Organisms.
P. Nghe, S. Boulineau, S. Gude, P. Recouvreux, J.S. van Zon, S.J. Tans
PLoS ONE 8(9): e75537 (2013)

Robustness and epistasis in the C. elegans vulval signaling network revealed by pathway dosage modulation.
M. Barkoulas, J.S. van Zon, J. Milloz, A. van Oudenaarden, M.A. FĂ©lix.
Dev Cell. 24:64-75 (2013)

Direct cell reprogramming is a stochastic process amenable to acceleration.
J. Hanna, K. Saha, B. Pando, J. van Zon, C.J. Lengner, M.P. Creyghton, A. van Oudenaarden, R. Jaenisch.
Nature. 462:595-601 (2009)

 

MODELING OF BIOCHEMICAL NETWORKS

Movement and equipositioning of plasmids by ParA filament disassembly.
S. Ringgaard, J. van Zon, M. Howard, K. Gerdes.
Proc Natl Acad Sci U S A. 106:19369-74 (2009)

A mechanical bottleneck explains the variation in cup growth during FcgammaR phagocytosis.
J.S. van Zon, G. Tzircotis, E. Caron, M. Howard
Mol Syst Biol. 5:298 (2009)

An allosteric model of circadian KaiC phosphorylation.
J.S. van Zon, D.K. Lubensky, P.R. Altena, P.R. ten Wolde.
Proc Natl Acad Sci U S A. 104:7420-5 (2007)

Simulating biochemical networks at the particle level and in time and space: Green’s function reaction dynamics.
J.S. van Zon JS, P.R. ten Wolde
Phys Rev Lett. 94:128103 (2005)