Cell Culture
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Neutrophil Motility upon Stimulation
How does immune cell polarity respond to changing stimuli? Introduction Neutrophils are fast-moving immune cells that polarize and reorient in response to external signals. Using optogenetic control of PI3K, recent experiments revealed that when a localized light stimulus becomes global, cells reverse their polarity — a behaviour not predicted by classical models.
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Human Airway Infection
Viral Spread within the Human Airway Epithelium (HAE) Introduction The spread of viral infections within tissues depends on several factors including the spatial distribution and turnover dynamics of target cells.
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Collective Motion
Introduction Collective motion of human breast cancer cells of the cell line MDA-MB-231 was studied by Lee et al. for individual crawling cells, cell doublets, cell quadruplets and for confluent populations on a two-dimensional substrate.
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Bat & Monkey Immunity
Introduction Brook et al. studied the effect of distinct immune phenotypes on cellular-scale viral propagation in three mammalian kidney cell lines with different interferon pathways (IFN). Differences in the IFN response upon pathogen invasion allowed to experimentally observe, model and numerically simulate viral dynamics in cells with
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Tumor (Unlimited Supply)
Introduction In Jagiella et al. 2017 a quantitative single cell-based mathematical model for multi-cellular tumor spheroids was parametrized by Bayesian inference for different scenarios of nutrition and oxygen supply. The simulations generate of the order of a million individual cells.
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MDCK EMT A
Multiscale simulation of EMT by minimal signaling circuit Introduction We model epithelial-mesenchymal transition (EMT) by first assembling an ODE model for intracellular Yes-associated protein (YAP) signalling and then embedding this single cell model within individual cells in a multiscale simulation.
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MDCK EMT B
Simulated sheet morphology for YAP knockdown (KD) and overexpression (OE) Introduction We model epithelial-mesenchymal transition (EMT) by first assembling an ODE model for intracellular Yes-associated protein (YAP) signalling and then embedding this single cell model within individual cells in a multiscale simulation.
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MDCK EMT C
Multiple models in epithelial-mesenchymal transitions (EMT) Introduction We model epithelial-mesenchymal transition (EMT) by first assembling an ODE model for intracellular Yes-associated protein (YAP) signalling and then embedding this single cell model within individual cells in a multiscale simulation.
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MDCK EMT D
Multiscale model of epithelial-mesenchymal transition (EMT) with intracellular TGFβ signaling circuit Introduction The growth factor TGFβ regulates the snail-zeb intracellular circuit that affects EMT by controlling the levels of E and N-cadherin expression.
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Human ESC Patterning
Introduction The formation and maintenance of three germ layers in colonies of human embryonic stem cells (ESCs) is sensitive to the geometry of the colony. In vitro experiments with micropatterns controlling colony shape have previously addressed the underlying spatio-temporal patterning in Warmflash et al.
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Human iPSC CDH1-KD
Introduction Human induced pluripotent stem cells (hiPSCs) can be grown in cell culture where they self-organize spatial patterns. Libby et al. have employed inducible CRISPR interference-driven genetic perturbations to modulate mechanical cell properties like cell-cell adhesion and cortical tension.
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Human iPSC ROCK1-KD
Introduction Human induced pluripotent stem cells (hiPSCs) can be grown in cell culture where they self-organize spatial patterns. Libby et al. have employed inducible CRISPR interference-driven genetic perturbations to modulate mechanical cell properties like cell-cell adhesion and cortical tension.
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Human iPSC WT Growth
Introduction Human induced pluripotent stem cells (hiPSCs) can be grown in cell culture where they self-organize spatial patterns. Libby et al. have employed inducible CRISPR interference-driven genetic perturbations to modulate mechanical cell properties like cell-cell adhesion and cortical tension.