Qualitative Dynamical Modelling Can Formally Explain Mesoderm Specification and Predict Novel Developmental Phenotypes
Fig 3
Regulatory graph for the signalling/transcriptional network controlling drosophila mesoderm specification.
Built with the software GINsim, this regulatory graph encompasses the main regulatory factors and interactions involved in mesoderm specification (stages 8–10), as documented by published (molecular) genetic and functional genomic data. Ellipses denote Boolean nodes, whereas rectangles denote multilevel nodes. Light green filling denotes input nodes, most corresponding to factors expressed in and acting from the ectoderm. Yellow filling denotes output factors, mostly effector genes and tissue markers. Blue or grey filling denotes internal nodes expressed in the mesoderm. Green arrows and red blunt arrows denote activations and inhibitions, respectively. Logical rules are further associated with each node to define its behaviour depending on regulatory inputs (cf. S1 Table). To ease the dynamical analysis of this regulatory graph, we performed a reduction of this regulatory graph (cf. Material and methods), making implicit the twelve grey components. This logical model is provided as supporting data, including comprehensive annotations and bibliographical references.