Postdoc position on biomedical text mining at the Novo Nordisk Foundation Center for Protein Research

University of Copenhagen
Novo Nordisk Foundation Center for Protein Research
Denmark Copenhagen


A postdoc position for 2 years is available in the Cellular Network Biology group at The Novo Nordisk Foundation Center for Protein Research (CPR;

The center has been 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 consists of two research groups covering many systems level aspects of biology and medicine, including the integration of molecular-level data and healthcare data, including biomedical texts.

Responsibilities and tasks
The Cellular Network Biology group led by Lars Juhl Jensen focuses on network-based analysis of proteins in the context of cellular signaling and disease. The postdoc will work on development of advanced methods for protein-centric text mining of large corpora, including how to best combine the efficiency of existing dictionary-based named entity recognition methods with machine learning techniques, in particular word embedding and distant supervision. The resulting improved methods will in collaboration with other group members be integrated into STRING ( and related databases and tools, which will be used within the Illuminating the Druggable Genome project ( and be made available under open licenses.

Projected start date: June 2019.

Place of employment and work
The employment is at CPR, 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. Seminars with high-profile international speakers and regular internal research seminars are organized at the Center. The selected candidate should expect some travel activity.

For more information on working and living in Denmark, please visit (International Staff Mobility) and

Terms of salary and employment
Salary, pension and terms of employment will be in accordance with the agreement between the Ministry of Finance and The Academics Central organization. Currently, the monthly salary is approx. 33,700 - 35,500 DKK (approx. 4,500 - 4,760 EURO) plus 17.1 % in pension contribution.

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:

Duration: 2 years with the possibility of extension of employment.

Application procedure
Your application should be submitted electronically by clicking ‘APPLY NOW’ below.
Please note that only applications sent online will be accepted.

Your application should include the following documents:
Motivated letter of application
Curriculum vitae, incl. education and experience
Copy of diplomas/degree certificate(s)
List of publications.

Deadline for applications: March 15, 2019, 23:59 CET.

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.

You can read about the recruitment process at

For further information about the position, please contact CPR:
For information about the process and system, please contract:


Candidates for the postdoctoral positions must hold a PhD degree (or equivalent) within a relevant discipline and have strong programming experience. The successful candidates will have strong qualifications or experience within several of the following areas:
Text mining.
Bioinformatics / computational biology.
Machine learning.
Statistical data mining.
Biomedical ontologies.
Programming in Python and/or C++.
The cellular network biology group is highly multidisciplinary and international. Members are expected to collaborate both within the group, within the center, nationally, and internationally. Strong networking and team player skills are therefore valued.

Start date

To be determined

How to Apply

Application must be done via the University of Copenhagen job portal: