<p>Swiss Institute of Bioinformatics</p>
The two PhD positions are part of a collaborative project, funded by the Swiss
National Science Foundation, between the groups of Nicolas Salamin
(Computational Biology and Phylogenetics, Department of Ecology and Evolution)
and Marc Robinson-Rechavi (Bioinformatics, Department of Ecology and
Evolution) at the University of Lausanne, and the group of Bastien Chopard
(Computer Science Department) at the University of Geneva; all three groups
are members of the Swiss Institute of Bioinformatics.
The overall aim of the project is to develop and improve the algorithms used
to estimate the selective pressure acting on DNA sequences by combining
biological realism and computational efficiency. More specifically, the project
is divided in two parts:
- The first one aims at proposing novel algorithms to enable efficient
parallelisation of the likelihood calculations of codon models. The goal is to
develop a true high-performance computer approach to the optimisation of
maximum likelihood to study molecular evolution within a phylogenetic context.
- The second one aims at developing a Bayesian approach to estimate positive
selection. The goal is to propose novel approaches to facilitate the
identification of specific sites and lineages under different types of selective
Both parts of the project will be enhanced by using high performance computing
facilities (e.g.~IBM Blue Gene/Q) available within the CADMOS center.
We are looking for autonomous and ambitious students with enthusiasm for
inter-disciplinary work. The students will need to interact productively with
evolutionary biologists, genome biologists and computer scientists, and read
the corresponding range of scientific literature. Candidates must have
completed their Master's degree or equivalent in a relevant field.
The requirements for each part of the project include a strong mathematical or
statistical and computer science background and deep interest in theoretical
aspects of evolutionary biology and bioinformatics. Previous experience with
evolutionary biology and/or parallel computing is a plus but not a
The successful candidates will be part of the Department of Ecology and
Evolution of the University of Lausanne, the Department of Computer Science of
the University of Geneva, as well as the Swiss Institute of Bioinformatics.
Our research groups offer a supportive and stimulating environment, with access
to excellent computer and academic facilities.
To apply, please send by email
- a letter describing your research motivation and experience
- a detailed CV
- contact details of three referees
Nicolas Salamin (email@example.com)