PhD scholarship in Cancer Bioinformatics

Updated: 3 months ago
Job Type: FullTime
Deadline: 16 Mar 2021

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 http://www.dtu.dk/english/Education/PhD/Rules/PhDguide 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 http://www.dtu.dk/english/about/job-and-career/working-at-dtu/career-paths career paths at DTU here.

Further information
Further information may be obtained from Associate Professor Elena Papaleo, mailto:elpap@dtu.dk elpap@dtu.dk

You can read more about DTU Health Tech at http://www.healthtech.dtu.dk/english .<br">www.healthtech.dtu.dk/english .<>< a=""> />
If you are applying from abroad, you may find useful information on working in Denmark and at DTU at https://www.dtu.dk/english/about/job-and-career/moving-to-denmark DTU – Moving to Denmark.

Application procedure
Your complete online application must be submitted no later than 16 February 2021 (Danish time). Applications must be submitted as one PDF file containing all materials to be given consideration. To apply, please open the link "Apply online", fill out the online application form, and attach all your materials in English in one PDF file. The file must include:

You may apply prior to ob­tai­ning your master's degree but cannot begin before having received it.

All interested candidates irrespective of age, gender, race, disability, religion or ethnic background are encouraged to apply.

DTU Health Tech engages in research, education, and innovation base on technical and natural science for the healthcare sector. The Healthcare sector is a globally expanding market with demands for the most advanced technological solutions. DTU Health Tech creates the foundation for companies to develop new and innovative services and products which benefit people and create value for society. DTU Health Techs expertise spans from imaging and biosensor techniques, across digital health and biological modelling, to biopharma technologies.The department has a scientific staff of about 175 persons, 130 PhD students and a technical/administrative support staff of about 80 persons.

Technology for people
DTU develops technology for people. With our international elite research and study programmes, we are helping to create a better world and to solve the global challenges formulated in the UN’s 17 Sustainable Development Goals. Hans Christian Ørsted founded DTU in 1829 with a clear vision to develop and create value using science and engineering to benefit society. That vision lives on today. DTU has 12,000 students and 6,000 employees. We work in an international atmosphere and have an inclusive, evolving, and informal working environment. Our main campus is in Kgs. Lyngby north of Copenhagen and we have campuses in Roskilde and Ballerup and in Sisimiut in Greenland.

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