Colloquium Mathematics, Dr. Veronica Vinciotti

18 February 2014

Join us for coffee and tea at 15.30 p.m.

Date: Tuesday, February 18^th 2014

Speaker: Dr. Veronica Vinciotti (Brunel University, UK)

Room: 5161.0293 (Bernoulliborg)

Time: 16.00

Title: Network modelling of ChIP-seq and RNA-seq data

Abstract:

An important biological question is the one of detecting the regions in the genome bound by chromatin modifiers or transcription factors, as these give insight into the mechanism of gene regulation. ChIP sequencing (ChIP-seq) is a biological method to detect these, by generating sequence reads at the positions bound by a transcription factor. When data is collected on more than one protein, the interest is also in the discovery of regions that are uniquely bound by a protein. In this talk, we present a Markov random field model for the modelling of ChIP-seq data from multiple experiments, including technical and biological experiments as well as experiments on different proteins. The statistical model accounts for the fact that the different antibodies used for experiments on different proteins are associated with different levels of efficiency. The output of the model can be used as prior information when inferring large scale networks from RNA-sequencing data.