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Enhanced Waddington Landscape Model with Cell-Cell Communication Can Explain Molecular Mechanisms of Self-Organization

H. Fooladi, P. Moradi, A. Sharifi-Zarchi, B. H. Khalaj
doi: https://doi.org/10.1101/241604
H. Fooladi
*Department of Electrical Engineering, Sharif University of Technology, Tehran, Iran (, ).
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  • For correspondence: fooladi.hosein@gmail.com parsa.mordadi@ee.sharif.edu
P. Moradi
*Department of Electrical Engineering, Sharif University of Technology, Tehran, Iran (, ).
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  • For correspondence: fooladi.hosein@gmail.com parsa.mordadi@ee.sharif.edu
A. Sharifi-Zarchi
†Department of Computer Engineering, Sharif University of Technology, Tehran, Iran
‡Department of Stem Cells and Developmental Biology, Cell Science Research Center, Royan Institute for Stem Cell Biology and Technology, ACECR, Tehran, Iran
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B. H. Khalaj
*Department of Electrical Engineering, Sharif University of Technology, Tehran, Iran (, ).
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  • For correspondence: fooladi.hosein@gmail.com parsa.mordadi@ee.sharif.edu
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Abstract

The molecular mechanisms of self-organization that orchestrate embryonic cells to create astonishing patterns have been among major questions of developmental biology. It is recently shown that embryonic stem cells (ESCs), when cultured on particular micropatterns, can self-organize and mimic early steps of pre-implantation embryogenesis. A systems-biology model to address this observation from a dynamical systems perspective is essential. Here, we propose a multicellular mathematical model for pattern formation during in vitro gastrulation of human ESCs. This model enhances the basic principles of Waddington epigenetic landscape with cell-cell communication, in order to enable pattern and tissue formation. To prevent overfitting of the model, there is a minimal number of parameters in the model, which are sufficient to address different experimental observations such as the formation of three germ layers and trophectoderm, responses to altered culture conditions and micropattern diameters, and unexpected spotted forms of the germ layers under certain conditions. This model provides a basis for in-silico modeling of self-organization.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted January 01, 2018.
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Enhanced Waddington Landscape Model with Cell-Cell Communication Can Explain Molecular Mechanisms of Self-Organization
H. Fooladi, P. Moradi, A. Sharifi-Zarchi, B. H. Khalaj
bioRxiv 241604; doi: https://doi.org/10.1101/241604
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Enhanced Waddington Landscape Model with Cell-Cell Communication Can Explain Molecular Mechanisms of Self-Organization
H. Fooladi, P. Moradi, A. Sharifi-Zarchi, B. H. Khalaj
bioRxiv 241604; doi: https://doi.org/10.1101/241604

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