The Zarnack lab uses computational methods to study the molecular mechanisms of posttranscriptional regulation. A main focus of the group is the description of critical regulatory decisions and the characterisation of the responsible RNA-binding proteins (RBPs) from a genomic perspective. We participate in the FOR2333 Research Unit with the following project:
Project 1: In collaboration with the Niessing and König labs, we will continue our study how the RNA-binding protein She2p associates with its cargo mRNAs and further proteins into distinct mRNA transport complexes in yeast. We will used detailed structural information from the Niessing group to derive models to predict in silico the location of SHE binding sites and to investigate how these RNA localization elements are specifically recognized by the SHE machinery in the nucleus and the cytoplasm. By integrating the information from transcriptome-wide in vitro and in vivo RBP binding maps with structural biology, we will disentangle the combinatorial contribution of multiple proteins to SHE binding and mRNA localization in this important model system.