Understanding the interplay of enhancers, chromatin priming elements and signals regulating dynamic gene expression in development

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• Dr Inti Pagnuco
• Wednesday 23 February 2022, 12:00-13:00
• online via zoom.

If you have a question about this talk, please contact Jordan McCormick.

The developmental control of gene expression is a highly dynamic process that ensures that genes are expressed at the correct time, in the correct cell type and at the correct level. This process is regulated via a complex interplay of transcription factors (TF) and molecules that change chromatin structure. Using the amount of sequencing-based data available for the different stages of haematopoietic specification of murine ES cell, our project goal is to predict enhancer/priming element activity and thus understand the temporal regulation of gene expression. In this seminar, I will present, 1) the biological problem; 2) a Machine Learning technique called iterative Random Forests (iRF) that through training a classifier, it discovers important (nonlinear) interactions between features (TF binding patterns, chromatin marks and chromatin state) that define enhancer activity for subsets of genomic elements; 3) a bias in the data due to the biological nature of the problem; 4) and possible new approach to deal with this bias.

This talk is part of the CCB seminars series.

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