Tag Archives: science day

Poster about the EAGLE tool at University Hospital Essen Science Day 2015

Exome Analysis GraphicaL Environment (EAGLE)

Christopher Schröder, Christoph Stahl, Felix Mölder, André Janowicz, Jasmin Beygo, Marcel Martin, Sven Rahmanneagle

The Exome Analysis GraphicaL Environment (EAGLE) combines a best practices variant calling workflow, with a web frontend. By storing the called information in speficially structerd hdf5 files, EAGLE allows filtering and parameter tuning in almost real time. This enables iterative tuning of thresholds, or the selection of different samples for filtering by non computer scientists via the web interface.

Christopher Schröder presents a poster at Science Day 2013, University Hospital Essen

Target identification for metabolic engineering,

Christopher Schröder, Sven Rahmanntarget-poster

In metabolic engineering by gene knockouts, one searches for genes controlling metabolic reactions that should be removed from a metabolic network in order to optimize the yield of a desired metabolite.

In a conservative way, this is done by undirected mutagenesis selection of the population with best efficiency.

Unrean et al. developed a simple algorithm to directly predict reaction targets, to save the high costs of this uncontrolled expensive process. It is based on elementary modes, undecomposable sequences of metabolite transformation flows in the network.

We substantially improved the algorithm and applied it to a network of Escherichia coli to show the improved results.