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Spatio-temporal modeling network on plant systems (STEMN)

From observation to theory.

Imagine clicking on a plant and zooming in to any level of detail. Finding links to experimental observations, to theory and above all to computable models of any or all parts of the plant. Watch growth, differentiation, responses to parasites and much more. Well, it's not yet possible. Why do it? Quite apart from educational merits it would provide evidence that all these things are properly understood and that will help society. A worthwhile goal.

Try clicking on names: right (and add links to your work)

<imagemap> Image:Web_page_graphic.png|300px|right rect 360 209 443 231 Leaves rect 352 88 443 115 Flowers desc bottom-right </imagemap>

Leaves Flowers Reproduction Clocks Growing meristem Seliques Energetics Regulation Control Signalling Differentiation Branching Root Defence

Prize: learn a technique by visiting a laboratory

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Travel Prize to be won by participants of any of the sponsored workshops. Find out more.

Summary of STEMN


  • GARNet (Genomic Arabidopsis Resource Network)
  • Signet Cell Signalling Network
  • CPIB Centre for Plant Integrative Biology
  • SToMP network is a collaborative research network between mathematical modellers and microbiologists.
  • GENESYS Promote the required integration between genetics, bioinformatics and mathematics to facilitate the reverse-engineering of regulatory networks
  • I2M Immunology, Imaging and Modelling
  • iPlant Tackling the 'Grand challenge' of creating a cyberinfrastructure that supports plant biology.
  • Computable Plant An early start on the challenge.
  • L-systems a classical work of beauty.
  • Virtual Laboratory software plant modelling software.
  • Virtual Plants OpenAlea for plant modelling and analysis. Software toolkit V-Plants, dedicated to the modeling and analysis of plant development at different scales.
  • Systems Biology Markup Language computer-readable format for representing models of biochemical reaction networks in software (note spatio-temporal aspects not yet developed).
  • 3D viewer that uses graphics card accelerator - good for OPT and confocal images Visualising Plant Development and Gene Expression in 3D using Optical Projection Tomography
  • PCA analysis of shapes Shape model toolbox for analysing 2D shapes (contact Andrew Bangham if you want 3D, stereo or haptics).


Year 2008 2009 2010

Using the Wiki

Why not start by consulting the User's Guide for information on using the wiki software.

Or consult the sites Wiki Syntax page for information on using the wiki syntax.

Contacts and acknowledgements

  • Sponsored by the BBSRC, UK