Partition function proposal distribution acceptance

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Partition function Proposal distribution Acceptance probability We only case the prior distribution for acceptance. Importance Sampling is also combined with MCMCMC. MCMCMC with Importance Sampling : Likelihood for configuration of a node n and its parents
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Order MCMC It sample over total orders not over structures. A B C A B C A C B B C A B A C C A B C B A
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Order MCMC It sample over total orders not over structures. Proposal move flipping two nodes of the previous order Computational limitations Using candidate sets S ets of parents with the highest scores in likelihood for each node Reduces the computation time.
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Order MCMC
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Order MCMC Selection features We can extract the edges by approximating and averaging under the stationary distribution, where
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Synthetical data 41 th to 50 th genes are not connected.
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Synthetic data - MCMCMC with Importance Sampling has the best performance. - Order MCMC is the second. - Order MCMC is much faster than MCMCMC with Importance Sampling.
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Synthetic data I changed one parameters for MCMC simulation. 1) Standard application (using standard parameters) 2) Change a noise value (Decrease noise value to 0.1) 3) Change a training data size (Decrease the size to 50) 4) Change the number of iterations (Increase the number to 50000) Standard parameters ( MCMC in Bayes Net Toolbox ) training data size:200, noise value:0.3, the number of iterations: 5000 (5000 samples and 5000 burn-ins)
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Synthetic data
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Synthetic data Convergence 1) MCMC in BNT 2) MCMCMC Importance Sampling (IM) 3) MCMCMC Importance Sampling (ID) 4) Order MCMC 1 2 3 4 training set size : 200 noise : 0.3 5000 iterations.
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Synthetic data MCMCMC (Burn-in# + Sample #) Left: 5000 + 5000 Right: 100000 + 100000 Acceptance ratios Left: MCMC in BNT, Right : Order MCMC Middle: MCMCMC with Importance Sampling
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Diffuse large B cell lymphoma Data Data discretisation I used K-means algorithms to discretise gene expression levels f or each genes since the stationary level for each gene can be diff erent from others. ( up, down and normal ) Problem of this discretisation If there are too many noises, the noises can make fluctuations Finally, this method can not work well for gene3.
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Diffuse large B cell lymphoma Data Comparison of convergence MCMC in BNT MCMCMC with Importance Sampling(ID) Order MCMC # of genes : 27 Training data size : 105 Iterations : 20000
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Diffuse large B cell lymphoma Data Comparison of Acceptance Ratios The number of genes : 27, Training data size : 105, Iterations : 20000
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Gene expression inoculated by viruses in susceptible Arabidopsis thaliana plants Viruses Cucumber mosaic cucumovirus Oil seed rape tobamovirus Turnip vein clearing tobamovirus Potato virus X potexvirus Turnip mosaic potyvirus 1) 2) 3) 4) 5) 1DAI 2DAI 3DAI 4DAI 5DAI 7DAI Symptom occurs.
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  • Fall '19
  • MCMC, Bayesian network, Directed acyclic graph

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