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1 Memory in the regulated-feedback network motif: Transcription factor X activates transcription factors Y1 and Y2. Y1 and Y2 mutually activate each...

1 Memory in the regulated-feedback network motif: Transcription factor X activates transcription factors Y1 and Y2. Y1 and Y2 mutually activate each other. The input function at the Y1 and Y2 promoters is an OR-gate. At time t=0, X begins to be produced from an initial concentration of X=0. All production rates are β=1 and degradation rates are α=1. All of the activation thresholds are K=0.5. At time t=3, X production stops.

(a) Plot the dynamics of X, Y1 and Y2. What happens to Y1 and Y2 after X decays away?

(b) Consider the same problem, but now Y1 and Y2 repress each other, and X activates Y1 and represses Y2. Y1 is activated if either X binds it or Y2 does not bind it. Y2 is activated only if neither X or Y1 bind it. At time t=0, X begins to be produced, and the initial levels are X=0, Y1=0 and Y2=1. At time t=3, X production stops. Plot the dynamics of the system. What happens after X decays away?

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