Goal: Reconstruct Cellular Networks Biocarta. Conditions Genes.

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Presentation transcript:

Goal: Reconstruct Cellular Networks Biocarta. Conditions Genes

Causal Reconstruction for Gene Expression u Use language of Bayesian networks to reconstruct causal connections Gene A Gene C Gene D Gene E Gene B Friedman et al, JCB 2000

Family of Alarm Bayesian Networks Qualitative part: Directed acyclic graph (DAG) u Nodes - random variables u Edges - direct influence Quantitative part: Set of conditional probability distributions e b e be b b e BE P(A | E,B) Earthquake Radio Burglary Alarm Call Compact representation of probability distributions via conditional independence Together: Define a unique distribution in a factored form

Learning Bayesian networks E R B A C.9.1 e b e be b b e BEP(A | E,B) Data + Prior Information Learner

Known Structure, Complete Data E B A.9.1 e b e be b b e BEP(A | E,B) ?? e b e ?? ? ? ?? be b b e BE E B A u Network structure is specified l Inducer needs to estimate parameters u Data does not contain missing values Learner E, B, A.

Unknown Structure, Complete Data E B A.9.1 e b e be b b e BEP(A | E,B) ?? e b e ?? ? ? ?? be b b e BE E B A u Network structure is not specified l Inducer needs to select arcs & estimate parameters u Data does not contain missing values E, B, A. Learner