Dataset Information

Flocking transitions in confluent tissues.

ABSTRACT: Collective cell migration in dense tissues underlies important biological processes, such as embryonic development, wound healing and cancer invasion. While many aspects of single cell movements are now well established, the mechanisms leading to displacements of cohesive cell groups are still poorly understood. To elucidate the emergence of collective migration in mechanosensitive cells, we examine a self-propelled Voronoi (SPV) model of confluent tissues with an orientational feedback that aligns a cell's polarization with its local migration velocity. While shape and motility are known to regulate a density-independent liquid-solid transition in tissues, we find that aligning interactions facilitate collective motion and promote solidification, with transitions that can be predicted by extending statistical physics tools such as effective temperature to this far-from-equilibrium system. In addition to accounting for recent experimental observations obtained with epithelial monolayers, our model predicts structural and dynamical signatures of flocking, which may serve as gateway to a more quantitative characterization of collective motility.

SUBMITTER: Giavazzi F

PROVIDER: S-EPMC5995478 | biostudies-literature | 2018 May

REPOSITORIES: biostudies-literature

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Flocking transitions in confluent tissues.

Giavazzi Fabio F Paoluzzi Matteo M Macchi Marta M Bi Dapeng D Scita Giorgio G Manning M Lisa ML Cerbino Roberto R Marchetti M Cristina MC

Soft matter 20180501 18

Collective cell migration in dense tissues underlies important biological processes, such as embryonic development, wound healing and cancer invasion. While many aspects of single cell movements are now well established, the mechanisms leading to displacements of cohesive cell groups are still poorly understood. To elucidate the emergence of collective migration in mechanosensitive cells, we examine a self-propelled Voronoi (SPV) model of confluent tissues with an orientational feedback that ali ...[more]

PMID: 29693694

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Project description:Mechanical cues such as stresses and strains are now recognized as essential regulators in many biological processes like cell division, gene expression or morphogenesis. Studying the interplay between these mechanical cues and biological responses requires experimental tools to measure these cues. In the context of large scale tissues, this can be achieved by segmenting individual cells to extract their shapes and deformations which in turn inform on their mechanical environment. Historically, this has been done by segmentation methods which are well known to be time consuming and error prone. In this context however, one doesn't necessarily require a cell-level description and a coarse-grained approach can be more efficient while using tools different from segmentation. The advent of machine learning and deep neural networks has revolutionized the field of image analysis in recent years, including in biomedical research. With the democratization of these techniques, more and more researchers are trying to apply them to their own biological systems. In this paper, we tackle a problem of cell shape measurement thanks to a large annotated dataset. We develop simple Convolutional Neural Networks (CNNs) which we thoroughly optimize in terms of architecture and complexity to question construction rules usually applied. We find that increasing the complexity of the networks rapidly no longer yields improvements in performance and that the number of kernels in each convolutional layer is the most important parameter to achieve good results. In addition, we compare our step-by-step approach with transfer learning and find that our simple, optimized CNNs give better predictions, are faster in training and analysis and don't require more technical knowledge to be implemented. Overall, we offer a roadmap to develop optimized models and argue that we should limit the complexity of such models. We conclude by illustrating this strategy on a similar problem and dataset.

Project description:Previous investigations document functional and phylogenetic signals in the histology of dinosaur teeth. In particular, incremental lines in dentin have been used to determine tooth growth and replacement rates in several dinosaurian clades. However, to date, few studies have investigated the dental microstructure of theropods in the omnivory/herbivory spectrum. Here we examine dental histology of Therizinosauria, a clade of large-bodied theropods bearing significant morphological evidence for herbivory, by examining the teeth of the early-diverging therizinosaurian Falcarius utahensis, and an isolated tooth referred to Suzhousaurus megatherioides, a highly specialized large-bodied representative. Despite attaining some of the largest body masses among maniraptoran theropod dinosaurs, therizinosaurian teeth are diminutive, measuring no more than 0.90 cm in crown height (CH) and 0.38 cm in crown base length (CBL). Comparisons with other theropods and non-theropodan herbivorous dinosaurs reveals that when controlling for estimated body mass, crown volume in therizinosaurians plots most closely with dinosaurs of similar dietary strategy as opposed to phylogenetic heritage. Analysis of incremental growth lines in dentin, observed in thin sections of therizinosaurian teeth, demonstrates that tooth growth rates fall within the range of other archosaurs, conforming to hypothesized physiological limitations on the production of dental tissues. Despite dietary differences between therizinosaurians and hypercarnivorous theropods, the types of enamel crystallites present and their spatial distribution-i.e., the schmelzmuster of both taxa-is limited to parallel enamel crystallites, the simplest form of enamel and the plesiomorphic condition for Theropoda. This finding supports previous hypotheses that dental microstructure is strongly influenced by phylogeny, yet equally supports suggestions of reduced reliance on oral processing in omnivorous/herbivorous theropods rather than the microstructural specializations to diet exhibited by non-theropodan herbivorous dinosaurs. Finally, although our sample is limited, we document a significant reduction in the rate of enamel apposition contrasted with increased relative enamel thickness between early and later diverging therizinosaurians that coincides with anatomical evidence for increased specializations to herbivory in the clade.

Dataset Information

Flocking transitions in confluent tissues.

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Flocking transitions in confluent tissues.

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