Master's Project at the Intersection of Integer Programming and Computational Biology at Department M&CS

Together with the Department of Biomedical Engineering (Computational 
Biology), I am offering a Master's project that can be started in 
January or later.

Suppose we are given a set of patients and for each patient the same 
medical measurements have been made (measuring bio transmitters etc). 
The goal of computational biology is to inspect the measurements and to 
detect rules between different transmitters that explain in which 
situations the human body produces certain proteins (which might be 
relevant in cancer diagnosis). Having such rules, one can develop 
medical treatments that prevent the body to produce these proteins. To 
be able to develop effective medical treatments, one is looking for 
simple rules between different bio transmitters e.g., transmitters 1 and
2 are active and transmitter 3 is inactive.

The goal of this Master's project is to develop and implement integer 
programming techniques that allow to find rules between different bio 
transmitters. Among others, we expect that techniques such as column 
generation and branch-and-price can be useful to achieve the desired 
goal. Since implementation is an important aspect of this project, good 
programming skills in Python and/or C/C++ are required.

Are you interested in this project or do you want to know more about it, 
please contact Christopher Hojny (c.hojny@tue.nl).