[HTML][HTML] How computational models can help unlock biological systems

GW Brodland - Seminars in cell & developmental biology, 2015 - Elsevier
With computation models playing an ever increasing role in the advancement of science, it is
important that researchers understand what it means to model something; recognize the …

Mesoscale physical principles of collective cell organization

X Trepat, E Sahai - Nature Physics, 2018 - nature.com
We review recent evidence showing that cell and tissue dynamics are governed by
mesoscale physical principles. These principles can be understood in terms of simple state …

[图书][B] The mathematics and mechanics of biological growth

A Goriely - 2017 - books.google.com
This monograph presents a general mathematical theory for biological growth. It provides
both a conceptual and a technical foundation for the understanding and analysis of …

Testing the differential adhesion hypothesis across the epithelial− mesenchymal transition

S Pawlizak, AW Fritsch, S Grosser… - New Journal of …, 2015 - iopscience.iop.org
We analyze the mechanical properties of three epithelial/mesenchymal cell lines (MCF-10A,
MDA-MB-231, MDA-MB-436) that exhibit a shift in E-, N-and P-cadherin levels characteristic …

Plateau Rayleigh instability simulation

R Mead-Hunter, AJC King, BJ Mullins - Langmuir, 2012 - ACS Publications
The well-known phenomena of Plateau–Rayleigh instability has been simulated using
computational fluid dynamics (CFD). The breakup of a liquid film into an array of droplets on …

Three-dimensional vertex model for simulating multicellular morphogenesis

S Okuda, Y Inoue, T Adachi - Biophysics and physicobiology, 2015 - jstage.jst.go.jp
During morphogenesis, various cellular activities are spatiotemporally coordinated on the
protein regulatory background to construct the complicated, three-dimensional (3D) …

Differences in boundary behavior in the 3D vertex and Voronoi models

E Lawson-Keister, T Zhang, F Nazari… - PLoS computational …, 2024 - journals.plos.org
An important open question in the modeling of biological tissues is how to identify the right
scale for coarse-graining, or equivalently, the right number of degrees of freedom. For …

Modeling Morphogenesis in silico and in vitro: TowardsQuantitative, Predictive, Cell-based Modeling

RMH Merks, P Koolwijk - Mathematical Modelling of Natural …, 2009 - cambridge.org
Cell-based, mathematical models help make sense of morphogenesis—ie cells organizing
into shape and pattern—by capturing cell behavior in simple, purely descriptive models. Cell …

p120ctn-mediated organ patterning precedes and determines pancreatic progenitor fate

P Nyeng, S Heilmann, ZM Löf-Öhlin, NF Pettersson… - Developmental cell, 2019 - cell.com
The mechanism of how organ shape emerges and specifies cell fate is not understood.
Pancreatic duct and endocrine lineages arise in a spatially distinct domain from the acinar …

Inferring cellular forces from image stacks

JH Veldhuis, A Ehsandar, JL Maître… - … of the Royal …, 2017 - royalsocietypublishing.org
Although the importance of cellular forces to a wide range of embryogenesis and disease
processes is widely recognized, measuring these forces is challenging, especially in three …