Sarah Carratt 4.14.11

(Difference between revisions)
 Revision as of 12:50, 14 April 2011 (view source) (New page: ==Overview== *dx/dt = production rate - degradation rate **degradation rate: amount a fraction of material beaks down in each unit time period **production rate: ***model factors: liner, M...)← Previous diff Current revision (12:52, 14 April 2011) (view source) (→Matrix Games) Line 9: Line 9: ==Matrix Games== ==Matrix Games== *Recall our adjacency matrix A ('''transpose''' of YEASTRACT) *Recall our adjacency matrix A ('''transpose''' of YEASTRACT) - **1 if gene j affects gene i (effectors on side, affectees on top) + **1 if gene j affects gene i **0 if not **0 if not *there are scaling factors of weights and thresholds *there are scaling factors of weights and thresholds

Overview

• dx/dt = production rate - degradation rate
• degradation rate: amount a fraction of material beaks down in each unit time period
• production rate:
• model factors: liner, MM, sigmoid (smoothing out of on-off switch)
• S'(x) = 1/ (1+e-x)
• S(w(x-t))where w=scaling,t=threshold at on-off junction

Matrix Games

• Recall our adjacency matrix A (transpose of YEASTRACT)
• 1 if gene j affects gene i
• 0 if not
• there are scaling factors of weights and thresholds
• affectee receives switching sights from affectors

Difference between "1" and "1"

• if more turns on and less "turns off"...activation
• more turns off and less "turns on"...activation
• switch between by flipping sign on scalar