Techniques for analysing pattern formation in populations of stem cells and their progenyReport as inadecuate




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BMC Bioinformatics

, 12:396

Networks analysis

Abstract

BackgroundTo investigate how patterns of cell differentiation are related to underlying intra- and inter-cellular signalling pathways, we use a stochastic individual-based model to simulate pattern formation when stem cells and their progeny are cultured as a monolayer. We assume that the fate of an individual cell is regulated by the signals it receives from neighbouring cells via either diffusive or juxtacrine signalling. We analyse simulated patterns using two different spatial statistical measures that are suited to planar multicellular systems: pair correlation functions PCFs and quadrat histograms QHs.

ResultsWith a diffusive signalling mechanism, pattern size revealed by PCFs is determined by both morphogen decay rate and a sensitivity parameter that determines the degree to which morphogen biases differentiation; high sensitivity and slow decay give rise to large-scale patterns. In contrast, with juxtacrine signalling, high sensitivity produces well-defined patterns over shorter lengthscales. QHs are simpler to compute than PCFs and allow us to distinguish between random differentiation at low sensitivities and patterned states generated at higher sensitivities.

ConclusionsPCFs and QHs together provide an effective means of characterising emergent patterns of differentiation in planar multicellular aggregates.

Electronic supplementary materialThe online version of this article doi:10.1186-1471-2105-12-396 contains supplementary material, which is available to authorized users.

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Author: John A Fozard - Glen R Kirkham - Lee DK Buttery - John R King - Oliver E Jensen - Helen M Byrne

Source: https://link.springer.com/







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