Inferring genetic regulatory logic from expression data

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Inferring genetic regulatory logic from
expression data

• Prepared by Chunhui CAI

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Logic gates

• Working principles of cis-regulatory elements
• OR logic
• AND logic
• NOR logic
• OR-NOR logic

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Bayesian network

• A probabilistic model
• Use probability as a means to express uncertainty
  about modeling variables and their dependencies.

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System and methods

• The model of gene regulatory interactions
• Xi regulator
• Y regulatee
• Ii intermediate variable
• ?i binding probability

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System and methods
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System and methods
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System and methods

• OR model

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System and methods

• OR-NOR model

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System and methods

• Rules
• Gene expression values two states
• 0 not expressed
• 1 expressed
• Type of regulation
• Simultaneous
• Time delay

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Result

• Regulatory interactions of 20 genes of
  S.cerevisiae. The full arcs represent activatory
  regulation, the dashed arcs represent inhibitory
  regulation. The relationship between genes
  regulating one common gene is described by
  OR-function.

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Discussion

• Probabilistic or deterministic
• Either Fitting of the expression data into
  state value (simply two states(0,1)?)
• Or Determining the activation/repression logic
• (Later) How good is our clustering method (need
  to improve and more expression data should be
  involved)