Speaker: Tomas Rube
Title: Quantifying sequence readout by transcription factors through principled analysis of high-throughput SELEX data.
Abstract: Transcription factors (TFs) control gene expression by binding to genomic DNA in a sequence-specific manner. In recent years, hundreds of TFs have been characterized using high-throughput in vitro DNA binding assays coupled with deep sequencing. Variations of these assays can characterize binding by TF complexes and by RNA-binding proteins, or binding to chemically modified DNA. However, no unified method for analyzing all these data yet exists. In this seminar, I will present a comprehensive and highly flexible modeling framework that can build accurate and interpretable biophysical models of TF binding from a wide range of high-throughput binding data. These methods predict binding affinities that are in near perfect agreement with existing gold-standard measurements, capture complex interactions between TFs, and identify functional low-affinity binding sites.
Friday 29 September 2023