PhD-position in delineating entropic contributions in amyloid formation

Project description In a healthy cell, proteins fold into compact structures with regions containing regular alpha-helical and beta-strand configurations. In …

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Arbeidsvoorwaarden

Standplaats:
De Boelelaan, Amsterdam, Noord-Holland
Dienstverband:
Tijdelijk contract / Tijdelijke opdracht
Uren per week:
40 uur
Opleidingsniveau:
WO

Functieomschrijving

Project description
In a healthy cell, proteins fold into compact structures with regions containing regular alpha-helical and beta-strand configurations. In diseases such as Alzheimer’s, proteins misfold and bind to each other using this same beta-stranded structure. The underlying physics, particularly the configurational entropy that explains how favourable this beta-strand state is, is yet to be properly understood.

In this project, you will tackle this problem by incorporating information extracted from unfolding experiments and from structural big data in large-scale computer simulations together with a team of local and international researchers..

Our approach to obtain these entropic contributions is multidisciplinary and involves mining big experimental data sets, performing focused experiments and simulating models with different levels of detail. We consider two physical systems to extract these contributions: 1) the elongation of amyloid fibrils and 2) the force unfolding of an auto-transporter protein.

Functie-eisen

To fill the PhD position for this project, we will be looking for a, highly motivated, enthusiastic candidate with the ability to proactively tackle the project’s research questions. The candidate should have a background (master degree or equivalent) in either Bioinformatics or Biophysics; the candidate should also have programming experience, and an outspoken interest in protein biophysics. Lab experience in handling proteins is considered an advantage.

Conditions

The initial appointment will be for a period of 1 year. After a satisfactory evaluation of the initial appointment this will be extended for a total duration of 4 years. You may find information about our excellent fringe benefits at http://www.workingatvu.nl.

• You are expected to travel extensively to our international collaborators; a travel budget is available;
• Remuneration of 8.3% end-of-year bonus and 8% holiday allowance;
• Participation in a solid pension scheme (ABP);
• A minimum of 29 holidays in case of full-time employment.

The salary will be in accordance with university regulations for academic personnel, and range from a minimum of € 2,222 gross per month in the first year up to a maximum of € 2,840 gross per month (salary scale 85.0-3) based on a full-time employment.

Additional information

For additional information please contact:
Dr. Sanne Abeln
Tel: +31 20 59 87816
e-mail: s.abeln@vu.nl

Department of Computer Sciences: http://www.cs.vu.nl
Project link: https://www.cs.vu.nl/en/news-agenda/recent-news/sanne-abeln-obtains-nwo-funding.aspx

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