Data Manager/Bioinformatician
Karolinska Institutet, Department of Oncology-Pathology / Kemiingenjörsjobb / Stockholm
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hela Sverige Do you want to contribute to top quality medical research?
Barntumörbanken (BTB), or in English: The Swedish Childhood Tumour Biobank, is a national infrastructure and sample collection for childhood tumors.
BTB performs deep sequencing and analysis on the collected samples in collaboration with the National Genomics Infrastructure (NGI) at The Science for Life Laboratory (SciLifeLab), the national centre for large-scale life science research with an advanced technological infrastructure. The aim of BTB is to promote research to increase the understanding of disease mechanisms for tumors in children and thereby contribute to the improvement of patient care and treatment.
BTB is currently also coordinating the national initiative Genomic Medicine Sweden (GMS) for paediatric cancer, with the purpose to implement whole genome sequencing in clinical practise for patients with childhood tumours. We are now looking for a motivated data manager/bioinformatician to contribute in developing sequencing data handling, and analysis, for the projects BTB manages and takes part in. This is an opportunity to work in a multi-disciplinary team in a continuously evolving research environment with the latest technologies in the field to support and enable high quality genomic research on childhood cancer.
Your mission
As a data manager/bioinformatician you would be primary responsible for managing large amounts of mainly DNA and RNA sequencing data, from raw data to comprehensively analysed results. The data is then mainly generated internally in collaboration with NGI/SciLifeLab and within the GMS-project. The tasks include to further develop the procedures for data management, including planning and maintaining storage systems, as well as routines for data transfer and documentation.
Additionally, focus will be on testing and maintaining analysis pipelines for the sequencing data both for basic research and for close to clinical application. This would include develop/install/run software and pipelines for analysis, visualization and interpretation of results concerning childhood tumour and paired normal samples.
The work will be performed both at the SciLifeLab and at BTB/Dept. of Pathology-Oncology together with colleagues of different expertise. A part of the job is also to keep up to date and in contact with the appropriate collaborators for NGS-data management.
Your profile
Requested requirements:
PhD or similar experience in computational biology, computer sciences or bioinformatics
Experience in data management and most common bioinformatics data sources and formats
Experience of NGS, and preferably WGS data
Programming skills, such as shell and Python
Vast experience working with Unix/Linux systems
Experience of configuration and maintenance of computer networks
Fluent spoken and written English
Preferred qualifications:
Experience from research in human genomics and transcriptomics, preferably in the area of cancer biology
Experience on developing project technical specifications
Experience in high performance computing, use of computer clusters
Experience on workflow managers such as Nextflow or similar
Experience on the development, generation and use of software containers e.g. Docker, Singularity or similar
Experience in database design and management
Ability to work independently, organized and take initiative
Excellent analytical and problem solving capabilities
Excellent communication, interpersonal skills and team-player.
Great emphasis will be placed on personal competence and suitability
What do we offer?
Karolinska Institutet is one of the world's leading medical universities. Our vision is to pursue the development of knowledge about life and to promote better health for all. At Karolinska Institutet, we conduct innovative medical research and provide the largest range of biomedical education in Sweden. Karolinska Institutet is a state university, which entitles employees to several benefits such as extended holiday and a generous occupational pension. Employees also have free access to our modern gym and receive reimbursements for medical care.
Location: Solna
https://ki.se/forskning/barntumorbankenhttps://www.scilifelab.se/facilities/ngi-stockholm/Application
Welcome to apply at the latest 2020-11-15.
The application is to be submitted through the Varbi recruitment system.
Permanent position is initiated by a six months trial period.
Want to make a difference? Join us and contribute to better health for all
Varaktighet, arbetstid
100%. Tillträde: According to agreement (December 1st, 2020) Tillsvidareanställning
Publiceringsdatum2021-01-19ErsättningMonthly salary
Så ansöker duSista dag att ansöka är 2021-01-20
Klicka på denna länk för att göra din ansökanFöretagKarolinska Institutet, Department of Oncology-Pathology
Arbetsgivarens referens Arbetsgivarens referens för detta jobb är "STÖD 2-4490/2020".
Omfattning Detta är ett heltidsjobb.
Arbetsgivare Karolinska Inst (org.nr 202100-2973)
Arbetsplats Karolinska Institutet, Department of Oncology-Pathology
Jobbnummer 5529910
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