Sweden PhD studies in Bioinformatics – Stockholm University

Stockholm University (SU)


Stockholm University invites applications for a PhD studies in Bioinformatics will be in the project: “Gene regulatory network inference”, in SciLifeLab , Department of Biochemistry and Biophysics

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General Info

Position: Phd student
No. of Positions: 1
Research Field:
Deadline to Apply: Expired
Joining Date: ASAP
Contract Period: 1 Year
Salary: According to Standard Norms

Department of Biochemistry and Biophysics
Stockholm University (SU)

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Qualification Details

Qualification requirements

In order to meet the general entry requirements, the applicant must have completed a second-cycle degree, completed courses equivalent to at least 240 higher education credits, of which 60 credits must be in the second cycle, or have otherwise acquired equivalent knowledge in Sweden or elsewhere.

In order to meet the specific entry requirements, for acceptance in the Biochemistry, especially Bioinformatics, program the applicant must have passed courses within the first and second cycles of at least 90 credits in either, a) Chemistry/Molecular Biology/Biotechnology, or b) Computer Science/Mathematics/Physics and at the second cycle level, 60 credits in Life Science, Computer Science Mathematics, Physics or Bioinformatics including a 30 credit Degree Project (thesis).

The qualification requirements must be met by the deadline for applications.


The selection among the eligible candidates will be based on their capacity to successfully complete the program. Important criteria when assessing this capacity are; documented knowledge and skill in the field of the thesis project, written and oral proficiency in English, the capacity for analytical thinking, the ability to collaborate, as well as creativity, initiative, and independence. The assessment will be based on previous experience and grades, the quality of the degree project, references, relevant experience, interviews and the candidate’s written motivation for seeking the position.

Responsibilities/Job Description

Your studies in Bioinformatics will be in the project: "Gene regulatory network inference".

The goal of the project is to develop and apply methods for inference of accurate and predictive gene regulatory networks (GRNs). The Sonnhammer group has extensive experience in GRN inference and has developed several algorithms to improve the reliability of the GRNs inferred from perturbations. The toolkit includes the GeneSpider package for GRN and data generation, which is used for GRN inference benchmarking with controlled network and data properties. The NestBoot GRN inference algorithm was devised to control the false discovery rate of network links. The project aims to develop new methods and improve existing methods to make them more reliable and scalable. They will be applied to perturbation data from public sources such as ENCODE as well as in-house data. The inferred GRNs will be analyzed for predictiveness and how well they reproduce known links. The project involves programming, data analysis, benchmarking, and application of the developed methods to experimental data generated by the group.

The successful candidate must be highly motivated and have an M.Sc. in bioinformatics or related field, and knowledge of molecular biology. Alternatively, an M.Sc. in molecular biology or related field and at least 1 year of documented practical experience in bioinformatics research and programming. Demonstrable familiarity with sequence and molecular data analysis techniques is essential. Computer programming with Matlab, Python, R, (Perl, C++, Java), UNIX skills, and knowledge of biological database systems are necessary merits.

How to Apply?

Online Application through "Apply Now" Button from this page or from advertisement webpage (URL below)

Reference Number: -
(If any, use it in the necessary place)

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Documents Required

Please include the following information with your application

  • Your contact details and personal data
  • Your highest degree
  • Your language skills
  • Contact details for 2–3 references

and, in addition, please include the following documents

  • Cover letter
  • CV – degrees and other completed courses, work experience and a list of degree projects/theses
  • Research proposal (no more than 3 pages) describing: – why you are interested in the field/project described in the advertisement – why and how you wish to complete the project – what makes you suitable for the project in question
  • Degree certificates and grades confirming that you meet the general and specific entry requirements (no more than 6 files)
  • Letters of recommendation (no more than 6 files)
  • Degree projects/theses (no more than 6 files).

The instructions for applicants are available at: How to apply for a position.

About the Department

SciLifeLab  (SciLifeLab) is a national center for molecular biosciences with focus on health and environmental research. The center combines frontline technical expertise with advanced knowledge of translational medicine and molecular bioscience. SciLifeLab is a national resource hosted by Karolinska Institutet, KTH Royal Institute of Technology, Stockholm University and Uppsala University. The center also collaborates with several other universities.

About the Employer: Stockholm University (SU)

Note or Other details

Admission Regulations for Doctoral Studies at Stockholm University are available at: www.su.se/rules and regulations.

The term of the initial contract may not exceed one year. The employment may be extended for a maximum of two years at a time. However, the total period of employment may not exceed the equivalent of four years of full-time study.

Doctoral students should primarily devote themselves to their own education, but may engage in teaching, research, and administration corresponding to a maximum of 20 % of a full-time position.

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Contact details

For more information, please contact the project leader, Professor Erik Sonnhammer, erik.sonnhammer@dbb.su.se.

General information about the PhD programs can be given by the Director of Doctoral Studies, Pia Ädelroth, pia.adelroth@dbb.su.se, or the Head of the Department, Martin Högbom, martin.hogbom@dbb.su.se.

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