Technical University of Denmark (DTU)

PhD scholarship in Cancer Bioinformatics (BB-1F328)

Found in: Neuvoo DK

Description:

DTU Heath Tech is seeking one PhD Student for the Cancer System Biology group headed by Associate Professor Elena Papaleo, to work in close collaboration with clinicians focusing on childhood cancer at Rigshospitalet. The collaboration further extends to clinical and research groups in Lund, Sweden, as part of the EU inter-regional cooperation effort iCOPE (Interregional Childhood Oncology Precision medicine Exploration).

The Cancer System Biology group is a newly formed group at DTU and is part of the Section of Bioinformatics at the department that houses different internationally-diverse research group in an open collaboratory atmosphere, and promoting synergy with other research groups at DTU.

The Section has access to Computerome2, a large life-science dedicated supercomputer and co-develops the bioinformatic environment on this platform. The spoken language is English and there is a strong emphasis on internationalization of the research environment.
The PhD student will enroll in the PhD School of Life Science at DTU.

Responsibilities and qualifications
A huge amount of data has been rapidly gathered on children with cancers in public available repositories and Scandinavian Hospitals. This includes data on germline whole genome sequencing, tumor mutations and gene expression, along with information on many clinical variables. For subsets of patients this also includes gene methylation and single-cell sequencing data. The group has also the possibility to collaborate with cancer cellular biologists to carry out experimental validation of the predictions from bioinformatic analyses using cellular models or in-vitro assays.

We seek for researchers in bioinformatics with expertise on gene expression, genomics and data integration to advance our research from the molecular basis of the disease to translational oncology and precision medicine.
The current recruitment will address, among others, one of the following areas:

  • Prioritisation of genomics variants of unknown significance
  • Functional annotations of variants
  • Identification of driver genes and mutations

  • Candidates will be computational biologists with strong communication and interpersonal skills to work on a daily base with biologists and clinicians. Supervision will be available on the different aspects of the research to facilitate candidates independently driving the research areas.

    The position is based at DTU with some time spent at the childhood oncology research groups at Rigshospitalet to enhance translational research. Visits for change of research environment can be carried out up to 25% of the project time at clinical and research facilities in Lund, which are the Swedish cooperative partners of the iCOPE project.

    Candidates should be able to exhibit the following personal and professional qualifications:
  • Comfortable with UNIX/Linux environment and bash scripting
  • Programming in R
  • Experience with Bioconductor packages
  • Experience with data management
  • Experience with biostatistical methods
  • Aptitude to biology and understand complex mechanisms
  • Strong written and spoken level of English
  • You enjoy working in a team, teaching to your colleagues and helping them with your knowledge and skills
  • Flexibility and self-motivation
  • Capable of working efficiently individually and as a member of a team

  • You must have a two-year master's degree (120 ECTS points) or a similar degree with an academic level equivalent to a two-year master's degree. Candidates should have a master’s degree in bioinformatics, life science, quantitative biology or similar degrees. Master’s degrees in computer science and engineering would require a background on biological subjects from previous research or courses.

    Approval and Enrolment
    The scholarship for the PhD degree is subject to academic approval, and the candidate will be enrolled in one of the general degree programmes at DTU. For information about our enrolment requirements and the general planning of the PhD study programme, please see the DTU PhD Guide.

    Assessment
    The assessment of the applicants will be made by Associate Professor Elena Papaleo.

    We offer
    DTU is a leading technical university globally recognized for the excellence of its research, education, innovation and scientific advice. We offer a rewarding and challenging job in an international environment. We strive for academic excellence in an environment characterized by collegial respect and academic freedom tempered by responsibility.

    Salary and appointment terms
    The appointment will be based on the collective agreement with the Danish Confederation of Professional Associations. The allowance will be agreed upon with the relevant union. The period of employment is 3 years.

    You can read more about

    Further information
    Further information may be obtained from Associate Professor Elena Papaleo, />
    If you are applying from abroad, you may find useful information on working in Denmark and at DTU at

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