Matching Models to Data in Modelling Morphogen Diffusion
Matching Models to Data in Modelling Morphogen Diffusion
The mechanism by which spatial patterns are established during embryonic development is usually modelled as passive diffusion of morphogen proteins translated from maternally deposited messenger RNAs. Such diffusion models assume a constant supply of morphogens at the source throughout the establishment of the required profile at steady state. Working with the bicoid morphogen which establishes the anterior-posterior axis in the Drosophila embryo, we note that this constant source assumption is unrealistic since the maternal mRNA is known to decay after a certain time since egg laying. We numerically solve the reaction diffusion equation for one dimensional morphogen propagation and match the resulting solution to measured data. By minimising the squared error between model outputs and measurements published in the FlyEx database, we show how parameters of diffusion rate, mRNA and protein decay constants, and the onset of maternal mRNA decay can be assigned sensible values.
978-952-10-5699-4
Liu, Wei
062dd3e4-39b6-45f5-9e48-583a67055830
Niranjan, Mahesan
5cbaeea8-7288-4b55-a89c-c43d212ddd4f
September 2009
Liu, Wei
062dd3e4-39b6-45f5-9e48-583a67055830
Niranjan, Mahesan
5cbaeea8-7288-4b55-a89c-c43d212ddd4f
Liu, Wei and Niranjan, Mahesan
(2009)
Matching Models to Data in Modelling Morphogen Diffusion.
Machine Learning in Systems Biology, http://mlsb09.ijs.si/files/MLSB09-Proceedings.pdf#page=67.
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Abstract
The mechanism by which spatial patterns are established during embryonic development is usually modelled as passive diffusion of morphogen proteins translated from maternally deposited messenger RNAs. Such diffusion models assume a constant supply of morphogens at the source throughout the establishment of the required profile at steady state. Working with the bicoid morphogen which establishes the anterior-posterior axis in the Drosophila embryo, we note that this constant source assumption is unrealistic since the maternal mRNA is known to decay after a certain time since egg laying. We numerically solve the reaction diffusion equation for one dimensional morphogen propagation and match the resulting solution to measured data. By minimising the squared error between model outputs and measurements published in the FlyEx database, we show how parameters of diffusion rate, mRNA and protein decay constants, and the onset of maternal mRNA decay can be assigned sensible values.
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Published date: September 2009
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Event Dates: September, 2009
Venue - Dates:
Machine Learning in Systems Biology, http://mlsb09.ijs.si/files/MLSB09-Proceedings.pdf#page=67, 2009-09-01
Organisations:
Southampton Wireless Group
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Local EPrints ID: 268200
URI: http://eprints.soton.ac.uk/id/eprint/268200
ISBN: 978-952-10-5699-4
PURE UUID: 45651efb-e65f-4a87-a4e4-1e29bf3121b1
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Date deposited: 11 Nov 2009 20:29
Last modified: 14 May 2024 01:40
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Author:
Wei Liu
Author:
Mahesan Niranjan
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