Related papers: Geometry of Morphogenesis
Animal morphogenesis often involves significant shape changes of epithelial tissue sheets. Great progress has been made in understanding the underlying cellular driving forces and their coordination through biomechanical feedback loops.…
Branching morphogenesis generates epithelial trees which facilitate gas exchange, filtering, as well as secretion processes with their large surface to volume ratio. In this review, we focus on the developmental mechanisms that control the…
In previous works [physics/0204035, physics/0404052, physics/0509126] a procedure was described for dividing the $3 \times N$-dimensional conformational space of a molecular system into a number of discrete cells, this partition allowed the…
Recent advances in cellular research demonstrate that scRNA-seq characterizes cellular heterogeneity, while spatial transcriptomics reveals the spatial distribution of gene expression. Cell representation is the fundamental issue in the two…
What does it mean for a shape to change continuously? Over the space of convex regions, there is only one "reasonable" answer. However, over a broader class of regions, such as the class of star-shaped regions, there can be many different…
The phase-field method has become in recent years the method of choice for simulating microstructural pattern formation during solidification. One of its main advantages is that time-dependent three-dimensional simulations become feasible.…
The dynamical phase-space of axisymmetric Canham-Helfrich (CH) cells is constructed from a Hamiltonian field recapitulating membrane curvature-elasticity and systemic restrictions. Guiding principles are reparametrization to convert a…
How can one fully harness the power of physics encoded in relativistic $N$-body phase space? Topologically, phase space is isomorphic to the product space of a simplex and a hypersphere and can be equipped with explicit coordinates and a…
Topography is the expression of both internal and external processes of a planetary body. Thus hypsometry (the study of topography) is a way to decipher the dynamic of a planet. For that purpose, the statistics of height and slopes may be…
We derive the evolution equations for the spectra of the Universe. Here "spectra" means the eigenvalues of the Laplacian defined on a space, which contain the geometrical information on the space. These equations are expected to be useful…
A phenomenological model of self-organization explaining the emergence of a complexity with features that apparently satisfy the specific criteria usually required for recognizing the appearance of life in laboratory is presented. The…
Morphogenesis is a tightly regulated process that has been studied for decades. We are developing data-based and image-basd mechanistic models for a range of developmental processes with a view to integrate the available knowledge and to…
This paper studies the configuration spaces of linkages whose underlying graph is a single cycle. Assume that the edge lengths are such that there are no configurations in which all the edges lie along a line. The main results are that,…
Tubular and membranous shapes display a wide range of morphologies that are difficult to analyze within a common framework. By generalizing the classical Helfrich energy of biomembranes, we model them as solutions to a curvature…
We use a result of Hawking and Gilkey to define a Euclidean path integral of gravity and matter which has the special property of being independent of the choice of basis in the space of fields. This property allows the path integral to…
This paper applies I.M. Gelfand's distinction between adequate and non-adequate use of mathematical language in different contexts to the newly opened window of model-based measurements of intracellular dynamics. The specifics of geometry…
Topological defects provide a unifying language to describe how orientational order breaks down in active and living matter. Considering cells as elongated particles confluent, epithelial tissues can be interpreted as nematic fields and its…
Understanding the emergence of biological structures and their changes is a complex problem. On a biochemical level, it is based on gene regulatory networks (GRN) consisting on interactions between the genes responsible for cell…
Cellular heterogeneity is an immanent property of biological systems that covers very different aspects of life ranging from genetic diversity to cell-to-cell variability driven by stochastic molecular interactions, and noise induced cell…
Developing epithelial tissues coordinate cell proliferation and mechanical forces to achieve proper size and shape. As epithelial cells tightly adhere together to form the confluent tissue, the distribution of cell areas significantly…