Computational Biology – Beasiswa Indonesia

A 3-year Science Foundation Ireland PhD studentship is available from October 2009 to work on an internationally collaborative project between Dr Avril Coghlan in University College Cork, Ireland and Dr Richard Durbin at the Wellcome Trust Sanger Institute, Cambridge, U.K. The successful candidate will be based at University College Cork but will visit the Sanger Institute for meetings with collaborators.

The project involves the development of a novel bioinformatics approach for inferring the genotypes of individuals at microsatellite (simple repeat) loci, using data from new DNA sequencing technologies. The novel bioinformatics method will be applied to data from the 1000 Genomes Project, an international project which aims to sequence the whole genomes of 1000 humans from around the world. By inferring genotypes at microsatellite loci in 1000 human individuals, this PhD project aims to investigate important unanswered questions about microsatellite processes and evolution.

The PhD student will have his/her fees paid, and will receive a tax-free stipend of 18500 euro in year 1, 19500 euro in year 2 and 20500 euro in year 3.

The ideal candidate will have an honours B.Sc. or M.Sc. in bioinformatics, computational biology, or a related subject. Candidates with a background in genetics or a related biological subject with strong mathematical skills, or with a background in mathematics or computer science with a strong interest in biology, are also encouraged to apply.

To apply for this position please send a cover letter, copy of B.Sc transcript and your CV to Dr. Avril Coghlan by email to a.coghlan [at] ucc.ie

The closing date for applications is August 30 2009.

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The PhD position is available in the Young Investigator Group “Multiscale Modelling of Protein-Protein Interactions”, which is integrated in the Computational Biology Cluster of Young Investigator Groups at the Research Centre Jülich. The research in this group is supervised by Dr. Birgit Strodel and is mainly focused on the understanding and prediction of protein-protein interactions using computer simulations, giving special attention to the interactions governing the process of amyloid formation. The group is part of the Institute of Structural Biology and Biophysics (ISB-3) and collaborates closely with the experimental groups (Prof. Willbold and Prof. Heise) in this institute. Furthermore, the group has access to excellent computational facilities at the Jülich Supercomputing Centre.

Project description:
The focus of this PhD project is on the investigation of the interactions between Alzheimer’s Abeta peptide and aggregation inhibitors using molecular simulations. In the group of Prof. Dieter Willbold, also in Jülich, such aggregation inhibitors are investigated experimentally, and it was shown in mice that they indeed have the potential to cure Alzheimer’s disease. However, little to nothing is known how and why these inhibitors are effective.

The aim of this PhD project is to gain structural information about the Abeta/inhibitor complexes and elucidate the mechanism of the inhibition effect. Such information would be valuable in the search of drugs against Alzheimer’s disease. This project will involve a close collaboration with the experimental group of Prof. Dieter Willbold. One aim, for instance, is to match experimental and calculated NMR data, which would allow one to make structural predictions from molecular simulations.

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Tag: Computational Biology

PhD Studentships in Bioinformatics / Computational Biology, University College Cork, Ireland

PhD Studentship in Computational Biology, Institute of Structural Biology and Biophysics (ISB-3), Germany