Special engineer, bioinformatics and precision medicine
A position as special engineer is available for three years for an IT engineer, with possibilities for prolongation.
The position will contribute to drive precision cancer medicine forward. Currently, a number of precision cancer projects are in motion at Oslo University Hospital (OUH). Nationally, the Infrastructure for Precision Diagnostics (InPreD) is developing advanced molecular cancer diagnostics (running for > 3 years with over 1500 patients sequenced), while the IMPRESS-Norway project is catering to the need for a national clinical precision cancer medicine trial (started inclusion 1. April 2021, over 350 offered treatment so far).
Furthermore, the Norwegian Centre for Clinical Cancer Research, MATRIX, has an emphasis on clinical cancer treatment research. On an international level, OUH is involved in several ongoing efforts, including two EU-funded projects, PCM4EU and PRIMEROSE, with 17 and 24 European partners, respectively, that are driving towards sharing of research data on ongoing clinical precision cancer medicine trials. This endeavor can be seen as a prelude to the development of a common health data space in Europe. The open position will be a crucial part of the computational team to drive these projects forward in a cross-disciplinary way, interacting with clinicians, molecular biologists, bioinformaticians and IT personnel.
The position will be connected to a vibrant environment of highly competent bioinformaticians within the Institute for Cancer Research, Norway´s premier cancer research institution. Moreover, the successful candidate will be integrated in the existing precision cancer medicine environment. Work tasks include tasks related to data transformation and consolidation, database management, dev/ops activities, infrastructure operations, as well as pipeline maintenance and development. Main activities will include working within existing IT structures, consolidation and harmonization of existing data derived from clinical trials nationally and internationally, partly molecular and partly clinical, facilitation of mechanisms for data sharing, analysis of sequencing data, as well as interaction with all national and international actors in these projects.
Oslo University Hospital is a workplace with great diversity. We believe this is absolutely crucial to solving the tasks required of us. We therefore want this diversity to be reflected among the applicants for our positions and encourage everyone to apply regardless of who you are and what background you have.
Qualification Requirements:
- Masters degree in bioinformatics or informatics.
- Thorough experience with Linux, as well as knowledge of traditional and cloud-based VMs
- Development using bash, Make, GCC, Autotools, etc.
- Command-line know-how and trouble-shooting experience
- Web servers (Apache)
- Container technologies (Docker, Singularity)
- DevOps
- Version control (Git / GitHub)
- General front-end development (Web, REST APIs, etc)
- Experience in creating computational workflows via workflow languages
- Database administration and development (PostgreSQL, SQLite)
- A firm grip of Python (preferably), Java, or other high-level programming languages
- Solid experience with clean coding principles
- Working knowledge of basic genomic concepts, data types, and data analysis methods, and their representation in software systems.
- Excellent communication skills in English, both oral and written.
Kontaktinformasjon
Eivind Hovig, Enhetsleder, +4793069881Arbeidssted
Ullernchausseen 700379 Oslo
Nøkkelinformasjon:
Arbeidsgiver: Oslo universitetssykehus HFReferansenr.: 4784736934
Stillingsprosent: 100%
Contract
Startdato: 01.05.2024
Sluttdato: 30.04.2027
Søknadsfrist: 29.03.2024