Fig 7. Varying behaviour of the system with LIF concentration, L.

(A) Three of the fixed points of the model with increasing L. The differentiated and transition state remain unchanged while the stem cell state moves to higher Nanog values. (B) The eigenvalues of the Jacobian at each of the three fixed points as L increases. The stem cell state becomes locally more stable, as indicated by the increasingly negative eigenvalues. The transition state becomes increasingly unstable, thereby making transition to this state less probable. The differentiated state is unaffected, but is seen to be locally more stable than the stem cell state. Complex eigenvalues are associated with rotational “curl” dynamics. (C) Variation of the probabilistic landscape. Upper plots show a sample of the sampled points while lower plots show the landscapes. As L decreases the valley at the differentiated state becomes deeper while that at the stem cell state becomes shallower. At intermediate values the landscape is flatter around the transition state.