Interplay of gene regulatory layers in regulating stem cell function
Dr. Aydan Bulut-Karslioglu, Prof. Dr. Martin Vingron
Embryonic stem cells balance genome-wide permissiveness with localized gene repression to enable flexible cell fate choices. At steady-state, stem cell chromatin is directly regulated by cellular growth rate, with protein synthesis acting as a gateway to permissiveness to transcription. In contrast to steady-state, a global overhaul of gene expression and chromatin status is often necessary for successful cell state or fate transitions. Selective translation and altered stability often contribute more to expression levels than nascent transcription. The aim of this project is to understand the complex interplay between different contributors to gene expression, with particular focus on those affecting pluripotent stem cell function.
For this project we are looking for a computational PhD student, who will be co-supervised by Dr. Bulut-Karslioglu and Prof. Vingron. The candidate will analyze and integrate several different types of omics datasets such as nascent transcriptomics and translation dynamics. Following the integrated omics analysis, sequence features of identified gene subsets will be investigated with the aim of identifying new genomic information content in regulating stem cell activity.
1. Bulut-Karslioglu, A. et al. The Transcriptionally Permissive Chromatin State of Embryonic Stem Cells Is Acutely Tuned to Translational Output. Cell Stem Cell 22, 369-383.e8 (2018).
For more information visit the website of the Bulut-Karslioglu lab (Stem Cell Chromatin Group) and the website of the Transcriptional Regulation Group (Vingron Department).