Quick tips for creating effective and impactful biological pathways using the Systems Biology Graphical Notation
Fig 2
Representation of energy storage by the ATP synthase at different levels of detail from the more abstract layer (left) to the more detailed layer (right).
In the first diagram, the nature of the entities is unspecified (oval shaped glyphs) and the modulation is of unknown direction. The second diagram is more detailed with a macromolecule “ATP synthase” that stimulates the reaction consuming the simple chemicals “ADP” and “Pi” to produce the simple chemical “ATP.” In the third diagram, the ATP glyph has been substituted by a complex, making the diagram even more precise. Finally, the forth diagram highlights an identified complex catalysing the synthesis of a simple chemical. ADP, adenosine diphosphate; Pi, inorganic phosphate.