[SocBiN] PhD in computational disease systems biology at The Novo Nordisk Foundation Center for Protein Research, University of Copenhagen

[Alan Wervick]

 PhD in computational disease systems biology
PhD in computational disease systems biology

A number of PhD positions are available in the Translational Disease
Systems Biology group at The Novo Nordisk Foundation Center for Protein
Research (CPR – www.cpr.ku.dk). The Center was established at the Faculty
of Health and Medical Sciences, University of Copenhagen, to promote basic
and applied discovery research on human proteins of medical relevance. The
Center comprises a wide range of expertise and resources including
proteomics, protein production, bioinformatics and general characterization
of disease mechanisms. The Programme for Disease Systems Biology (DSB)
consists of two research groups covering many systems level aspects of
biology and medicine, including the integration of molecular-level data and
healthcare data, for example laboratory test data and biomedical texts.

The Translational Disease Systems Biology group (
www.cpr.ku.dk/research/disease-systems-biology/brunak/) part of DSB and led
by Søren Brunak, focuses on establishing early competitive advantages in
disease-relevant computational analyses across the general areas of
bioinformatics, chemoinformatics, systems biology and medical informatics.

*Job description*
The PhDs will work in a multidisciplinary project team. One candidate will
work in the EU-ToxRisk consortium, a H2020-funded pan-European research
consortium, aiming at delivering strategies to enable reliable animal-free
hazard and risk assessment of chemicals.  One goal of the EU-ToxRisk
consortium is to integrate advancements in system biology and computational
modeling to define the complex chains of events that link chemical exposure
to toxic outcome. Another candidate will work on data-driven models of
temporal disease development using a combination of molecular data and data
from the healthcare sector, where the latter has the form of clinical,
registry data or complete electronic patient records. These models will in
part be descriptive and show how different diseases and diagnosis follow
each other over long periods and in part predictive in the sense that
longitudinal patterns of illnesses, medication and procedures will indicate
future events. The models may be augmented by molecular level biomarker
data from genomics or proteomics further increasing the predictive power.
Prior knowledge of disease classification schemes and standard vocabularies
is an advantage.

The candidates will focus on data analysis using computational systems
biology methods. The candidates will utilize data integration, statistical
genetics and pathway-based methods to identify novel biomarkers associated
to toxicology.

*Qualifications *
The candidates hold a master degree or equivalent in biology, genetics,
statistics, computational biology, bioinformatics or a related discipline
of biomedical research. Preferably, the candidates have experience in
statistical genetics, genomics, computational chemistry and knowledge of R.
Programming experience is an advantage as is having worked with big data.
Research experience in chemical toxicology is a plus. Furthermore, the
successful candidates have experience within some of the following areas:


   - Bioinformatics and systems biology at the molecular level
   - Experience with toxicology
   - Medicine, pharmacology or genomics
   - Project management of interdisciplinary research projects within
   translational bioinformatics
   - Experience with data structures, databases, and data architectures
   - Knowledge of biomedical resources and infrastructures
   - Competences within statistics and/or machine learning techniques
   - Broad understanding of Healthcare data from national registries and
   electronic patient records from hospitals
   - Prior research experience with healthcare terminologies, schemes and
   ontologies, e.g. ICD9, ICD10, ATC, and SNOMED CT
   - Experience with CDISC


The translational disease systems biology group is highly multidisciplinary
and collaborates with many other research groups nationally and
internationally. Strong networking and team player skills are therefore
preferred.

*Place of employment and work *
The employment is at CPR (www.cpr.ku.dk), University of Copenhagen, located
in central Copenhagen. The research environment at CPR is ambitious and
international, with approx. 30 different nationalities currently
represented. The Center comprises modern laboratories, supercomputer
resources and state-of-the-art facilities within protein science. The
Center organizes seminars with high-profile international speakers and
regular internal research seminars. The selected candidate should expect
some travel activity.

For more information on working and living in Denmark, visit www.ism.ku.dk
(International staff mobility) and www.workingconditions.ku.dk.

*Salary and terms of employment *
The duration of the positions is three years. It is conditioned upon the
candidates´ successful enrollment in the PhD programme. This requires
submission and acceptance of an application for the specific project
formulated by the candidate. The PhD study must be completed in accordance
with The Ministerial Order on the PhD programme (2013) and the University’s
rules on achieving the degree.  Salary, pension and terms of employment are
in accordance with the agree­ment between the Ministry of Finance and The
Danish Confederation of Professional Associations on Academics in the
State. Depending on seniority, the monthly salary begins around 26,000 DKK
(ca. 3.450 EUR) plus 17% pension.

The Danish Ministry of Finance and the Danish Confederation of Professional
Associations (AC) have agreed on a protocol that makes it possible for all
international researchers employed by the University to achieve a pension
exemption, where the pension will be paid as salary. For more information
about the different pension schemes: http://ism.ku.dk/onarrival/pension/

*Further information *
For further information, please contact Nanna Birch, nanna.birch at cpr.ku.dk.

*Application procedure*
Your application must be submitted electronically by clicking ‘Apply now’
below or via http://employment.ku.dk/faculty/
<http://employment.ku.dk/faculty/>

Your application should include the following documents:

   1. Motivated letter of application
   2. Curriculum vitae, incl. education and experience, publications (if
   any), language skills and other skills relevant for the position
   3. A certified/signed copy of Master of Science certificate. If not
   completed, a certified/signed copy of a recent transcript of records or a
   written statement from the institution or supervisor will do
   4. Names and contact details for two referees


*Deadline for application: October 31th 2017 *

After the expiry of the deadline for applications, the authorized
recruitment manager selects applicants for assessment on the advice of the
Appointments Committee. All applicants are then immediately notified
whether their application has been passed for assessment by an expert
assessment committee. Selected applicants are notified of the composition
of the committee and each applicant has the opportunity to comment on the
part of the assessment that relates to the applicant him/herself.

Assessment: The selected applications will be assessed according to the
Ministry Order on the Appointment of Academic Staff at Universities 2012
and the University of Copenhagen’s guidelines 2013. The Assessment
Committee makes a non-prioritized assessment of the academic qualifications
and experience with respect to the above mentioned area of research,
techniques, skills and other requirements listed in the advertisement.

You can read about the recruitment process at www.employment.ku.dk

CPR and the University of Copenhagen wish to reflect the diversity of
society and welcome applications from all qualified candidates regardless
of personal background.



*APPLY NOW
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Part of the International Alliance of Research Universities (IARU), and
among Europe’s top-ranking universities, the University of Copenhagen
promotes research and teaching of the highest international standard. Rich
in tradition and modern in outlook, the University gives students and staff
the opportunity to cultivate their talent in an ambitious and informal
environment. An effective organisation – with good working conditions and a
collaborative work culture – creates the ideal framework for a successful
academic career.
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