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Up Directory CCL 17.04.12 PhD Position in Computational Biochemistry
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Date: Wed Apr 12 10:37:01 2017
Subject: 17.04.12 PhD Position in Computational Biochemistry
Uppsala University is an international research university focused on the development of science and
education. Our most important assets are all the individuals who with their curiosity and their dedication 
make Uppsala University one of Swedens most exciting work places. Uppsala University has 40,000 students, 
7,000 employees and a turnover of SEK 6,5 billion.

In an effort to discover the physical principles for genome search and deciphering the elusive regulatory 
genetic code we are creating a research environment to connect biology, engineering and physics. This 
interdisciplinary milieu will close the loop between technology development and fundamental research 
with many important implications throughout the life sciences. 

The research labs involved are the Tenje and Andersson-Svahn groups, that work on microfluidic solutions 
for cell analysis, the Nilsson group that develops molecular diagnostics in situ, the Kamerlin group that 
performs computer simulations of protein-DNA interactions, and the Elf, Johansson and Deindl groups 
that investigate molecular interactions and kinetics using single molecule, systems biology and structural 

The technological outcome of the project will make it possible to connect dynamic phenotypes to the underlying 
genotype for thousands of different cells simultaneously. This method will have possible applications in many 
areas of science including drug discovery, biotech product optimization and basic genetic research.

The present position is located in the lab of Lynn Kamerlin at the Department of Molecular Systems Biology, 
Starting date: 2017-06-01, or as otherwise agreed. The Department of Cell and Molecular Biology (ICM) of Uppsala 
University is one of the most international, interdisciplinary and successful research departments in molecular 
biosciences in Europe including for example 5 ERC funded PIs, and an HFSP grantee.

Mission: We are looking for someone who wants to work in a curiosity-driven research environment with world-leading 
scientific projects. We offer a stimulating research environment at the interface between computational biology, 
biochemistry and microbiology where we characterize the basic mechanisms of bacterial gene regulation.

Duties/Project description: Together with the interdisciplinary team of researchers you will use and develop 
new methods for molecular dynamics simulations to be able to answer fundamental questions about molecular 
search kinetics and the regulatory genetic code. The project will focus on computational modeling of protein-DNA 
interactions, using a broad range of computational techniques, including molecular dynamics simulations, free 
energy calculations, and various enhanced sampling approaches. The aim will be to understand the molecular 
features that determine protein-DNA recognition, and how sequence changes in the DNA affect this. More 
details about the project can be found at the project webpage (, and details 
about research in the Kamerlin lab can be found at

Requirements: You have a passion for science and high ambitions to perform top quality research. You hold 
a master degree in a relevant subject area; you have good experience in at least one of the computational 
techniques of relevance to the project, and, while not mandatory, programming experience is a plus. Personal 
qualities, ability to work independently and at the same time be able to interact with other researchers is very
important. Excellent communication skills in written and spoken English are prerequisites.

Application: Please submit your application including a CV, a letter describing your research interest and skills, 
publications, a copy of your Masters thesis or equivalent, and either two reference letters or the contact details 
of two referees.

Information concerning doctoral education, requirements and rules of admission can be found at The length of the study period for full time 
employment is a maximum of four years. Rules governing Ph.D. candidates are set out in the Higher Education 
Ordinance Chapter 5,  1-7 and in Uppsala university's rules and guidelines

Uppsala University strives to be an inclusive workplace that promotes equal opportunities and attracts qualified 
candidates who can contribute to the Universitys excellence and diversity. We welcome applications from 
all sections of the community and from people of all backgrounds.

Pay: According to local agreement for PhD students and teaching assistants.
Starting: 2017-07-01 (or as agreed upon), temporary position ending 2021-06-30.

Working hours: 100 %

For more information, contact Lynn Kamerlin at kamerlin[at]
Apply online at:
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