Non-parametric Bayesian Chromatin State Segmentation

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• Will Allen (University of Cambridge and MRC-LMB)
• Monday 08 April 2013, 11:00-12:00
• Engineering Department, CBL Room BE-438.

If you have a question about this talk, please contact Zoubin Ghahramani.

Chromatin state segmentation—the division of a genome into regions of similar combinatorial patterns of DNA or histone modifications, as measured through high-throughput sequencing—is a common problem in genomics research. Recent large-scale projects have generated enormous amounts of chromatin state information, without corresponding advances in techniques for analyzing with these large, complex datasets.

In this talk, I will first outline the problem of chromatin state segmentation and discuss current approaches. I will then review the non-parametric Bayesian “sticky” HDP -HMM model for time-series segmentation, and introduce a variational mean-field algorithm for inference in the sticky HDP -HMM with an application to chromatin state segmentation.

This talk is part of the Machine Learning @ CUED series.

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