Morpheus

Author: Name

Aim:

• Learn to make implicit model assumptions explicit
• Learn about effect of noise and motility on cell fate decisions

Description:

• Introduce Delta-Notch model and patterning
  • dXi/dt = t/(t+aXj) - Xi + eta
  • Spatial patterning: checkerboard

• Assignment 1:

• Introduce tau
  • Time to decision (tau) depends on noise amplitude
  • Tau is important in context of other timed processes (e.g. lateral stabilization)

Paper:

• de Back W, Zhou JX, Brusch L. 2012, On the role of lateral stabilization during early patterning in the pancreas. J R Soc Interface 10: 20120766. link pdf
• W. de Back, R. Zimm, L. Brusch 2013, Transdifferentiation of Pancreatic Cells by Loss of Contact-mediated Signaling. BMC Systems Biology 7:77. link

Documents:

Morpheus models:

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>