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PhD fellow positions @ University of Copenhagen, Denmark.

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PhD fellow positions in Protein Structural Bioinformatics

Three or more PhD scholarships are available from June 1st, 2020, or as soon as possible thereafter, in the PRISM centre, Department of Biology, Faculty of Science, University of Copenhagen, Denmark. The research within PRISM bridges protein biophysics and genomics using computational and experimental methods. 

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The PhD projects in this call are focused on computational modelling and data analysis aspects of PRISM, within the research areas of structural bioinformatics of proteins, large-scale analysis of protein-protein interactions, and biological sequence analyses.

About the centre and research environment

The positions are part of the recently established Centre called PRISM: Protein Interactions and Stability in Medicine and Genomics, funded via a six-year Novo Nordisk Foundation Challenge grant. PRISM is a collaboration between three research groups at the Department of Biology, Copenhagen (led by Kresten Lindorff-Larsen, Amelie Stein, Rasmus Hartmann-Petersen), and Michele Vendruscolo (University of Cambridge, UK), Douglas M. Fowler (University of Washington, US) and Torben Hansen (Novo Nordisk Foundation centre for Basic Metabolic Research, DK).

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The Ph.D. students will work in the groups of Kresten Lindorff-Larsen or Amelie Stein, both located in the Department of Biology in central Copenhagen. The two research groups are members of the interdisciplinary and collaborative research environment at the Linderstrøm-Lang Centre for Protein Science. The Ph.D. students will work together with scientists from a number of disciplines, and also have the possibility of spending time in one or more of the partner laboratories within PRISM. The groups are highly international and a good level of spoken and written English is required.

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Details of the PhD projects

The PhD students will work on one or more of the subprojects within PRISM. Long-term goals include developing predictive and mechanistic models for how genomic variation in protein-coding regions (protein variants) affect the stability, interactions and function of proteins. For an introduction to the research see e.g. our recent review (Stein et al, TiBS, 2019, https://doi.org/10.1016/j.tibs.2019.01.003). Research topics for the PhD projects include:

•    Predicting effects of variation on protein stability and protein-protein interactions
•    Linking multiplexed/deep mutational scanning experiments to biophysical calculations
•    Development and application of prediction methods to interpret genomic variation

Principal supervisor is Professor Kresten Lindorff-Larsen (lindorff@bio.ku.dk) and students will be co-supervised by Assistant Professor Amelie Stein (amelie.stein@bio.ku.dk)

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Job description
The position is available for a 3-year period and your key tasks as a PhD student at SCIENCE are:

•    To manage and carry through your research project
•    Attend PhD courses
•    Write scientific articles and your PhD thesis
•    Teach and disseminate your research
•    To stay at an external research institution for a few months, preferably abroad
•    Work for the department

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Formal requirements 
We are seeking motivated and strong applicants with a MSc degree in bioinformatics, biophysics, physics, chemistry or biochemistry or similar fields with prior research experience (e.g. MSc projects) within one or more of these areas:

•    Structural bioinformatics
•    Computational analyses of the effects of protein sequence variation on protein stability, interactions and function
•    Biological sequence analysis
•    Computational analyses of high-throughput experiments

It will also be advantageous to have experience with one or more of the following:
•    The Rosetta software for protein structure modelling
•    Machine learning applications to protein structure or protein sequences
•    Analysis of NGS data

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Terms of employment 
The position is covered by the Memorandum on Job Structure for Academic Staff. 

Terms of appointment and payment accord to the agreement between the Ministry of Finance and The Danish Confederation of Professional Associations on Academics in the State. 

The starting salary is currently at a minimum DKK 328.355 (approx. €43,750) including annual supplement (+ pension at a minimum DKK 53,360). Negotiation for salary supplement is possible.

Application Procedure
The application, in English, must be submitted electronically by clicking APPLY NOW below.

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Please include
•    A cover letter (max 1. page) explaining your background, key skills and how they are relevant to the research in PRISM, and your motivation for applying
•    Curriculum vitae (max 2. pages) including educational background previous research experience
•    List of publications (including preprints and papers in active preparation)
•    Diploma and transcripts of records (BSc and MSc). If you do not yet hold your MSc and would like to apply, please submit a letter from your supervisor regarding your expected graduation date
•    Contact details for 1-2 former supervisors (no reference letters should be attached)

The University wishes our staff to reflect the diversity of society and thus welcomes applications from all qualified candidates regardless of personal background.

The deadline for applications is 01 March 2020, 23:59 GMT +1. 

After the expiry of the deadline for applications, the authorized recruitment manager selects applicants for assessment on the advice of the Interview Committee. Afterwards an assessment committee will be appointed to evaluate the selected applications. The applicants will be notified of the composition of the committee and the final selection of a successful candidate will be made by the Head of Department, based on the recommendations of the assessment committee and the interview committee.
The main criterion for selection will be the research potential of the applicant and the above mentioned skills. The successful candidate will then be requested to formally apply for enrolment as a PhD student at the PhD school of Science. You can read more about the recruitment process at http://employment.ku.dk/faculty/recruitment-process/.

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Questions
For specific information about the PhD scholarship, please contact the principal supervisor Professor Kresten Lindorff-Larsen (lindorff@bio.ku.dk; +45 3532 2027)
 
General information about PhD programmes at SCIENCE is available at http://www.science.ku.dk/phd.

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