Author: Fabian Rost

• this was planned as a one week project, students should develop a complex model
• teach them about biology: morphogenesis, cellular behavior, …
• teach them about mathematics: CPM, PDE, coupling

• good description on what has been done can be found in the report by the students (see section Papers)
• it's been two days of teaching:
  • first explain CPM and let them play with that a little (e.g. cell sorting)
  • explain PDE system we are going to use
    • I had to explain about phase plane analysis quiet a bit
• then on day 3 start to couple PDE & CPM
  • start with coupling in one direction only
    • e.g. first give a fixed gradient and let CPM cells perform chemotaxis
    • then formulate a PDE where a substance is only produced where CPM cells are
  • then couple in both directions (implement the Savill model)
    • perform clustering and slug movement experiment

• Savill, N. J., & Hogeweg, P. (1997). Modelling morphogenesis: from single cells to crawling slugs. J. Theor. Biol, 184, 229-235. link
• Stan Marée (2002), From pattern formation to morphogenesis: multicellular coordination in Dictyostelium discoideum link
• Alberto Quintero, Mirko Myllykoski, Anna Igolkina, Alexandra Rohde O’Sullivan Freltoft, Nitya Dixit, Fabian Rost (2012), Morphogenesis and Dynamics of Multicellular Systems, link

Link to Example page

<MorpheusModel version="1">
    <Description>
        <Title>Example-Model</Title>
    </Description>
    <Space>
        <Lattice class="linear">
            <Size value="100 0 0"/>
            <BoundaryConditions>
                <Condition boundary="x" type="periodic"/>
            </BoundaryConditions>
        </Lattice>
    </Space>
    <Time>
        <StartTime value="0"/>
        <StopTime value="100"/>
    </Time>
</MorpheusModel>