Multi-omics Bioinformatician

Do you want to contribute to improving human health?

At the Department of Oncology-Pathology basic, translational and clinical research and educational activities related to cancer is carried out. Approximately 300 people from over 40 nations are currently working at the department. About 30 research groups with various cancer research profiles are involved and we have around 110 PhD students. The Department of Oncology-Pathology is responsible for undergraduate courses in Pathology, Oncology and Forensic Medicine for medical students, as well as for Tumor biology courses for biomedicine students and Pathology courses for opticians.

The position will be placed in the Cancer proteomics Mass spectrometry research group headed by Professor Janne Lehtiö at Science for Life Laboratory (SciLifeLab). Karolinska Institutet is one of the four founding universities for SciLifeLab which is today national infrastructure and research center in technology driven life sciences. Lehtiö group is a translational group of scientists with a drive to improve human proteome analysis by developing new methods that can be applied to improve personalized cancer treatment. At present we seek to strengthen our research group with an outstanding scientist with proven expertise in interpretation and integration of cancer omics data and in generating value in both research and in translational settings. The employment is a permanent position with a trial period of 6 months. We offer a very stimulating and diverse work in a team of very motivated co-workers with expertise in cutting-edge technology.

Your mission

We are looking for an outstanding multi-omics bioinformatics with strong analytical and programming skills working on cancer omics data. The candidate should develop and set up bioinformatics pipelines to integrate tumor data from different technologies (including genomics, transcriptomics and proteomics) with the aim to generate novel knowledge about the tumor biology and associate the findings with emerging anti-cancer therapies. The bioinformatician is also expected to develop tools to facilitate the translation of the work into new clinical initiatives.

Tasks for the position:

Drive and run bioinformatics projects and serve as an expert in omics data interpretation
Guide the development of proteogenomics through implementation of novel algroithms and computational analysis infrastructure
Development of tools to support clinical initiatives in applications of genomics and proteomics
Integrate sequencing data from external and public resources to improve clinical research outcome
Supervise postdocs, graduate students and technical personnel in bioinformatics and proteogenomics analysis
Apply for external funding - both national and international
Actively participate in academic, industry and health care collaborations involving omics -based methods to improve cancer therapy

Your profile

Qualifications

PhD in bioinformatics, computer science, biology, medicine, or mathematical statistics.
Several years of postdoctoral or industry experience in cancer research and analyses of large-scale multi-omics cancer data.
Proven experience in development of bioinformatics tools and software packages.
Expertise in developing scalable and computational workflows for protegenomics analysis.
In-depth knowledge in NGS data processing from whole genome sequencing and RNA-seq, knowledge in single cell RNA-seq and spatial transcriptomics is a plus.
Solid knowledge in Mass-spec proteomics and proteogenomics data analysis and interpretation.
Substantial experience working in bash scripting and HPC Linux/Unix environment.
Proficiency in programming (preferably, Python and SQL).
Very good knowledge of cancer biology and translational cancer research.
Experience of collaboration between different disciplines and providing bioinformatics support.
Experience of implementational research.
A proven academic track record, including high-impact and highly cited publications.
Good knowledge in English, oral and written.

Additional merits

Expertise in web programming and web application development.
Expertise in managing large amounts of data by designing structured databases (PostgreSQL, MySQL).
Machine learning methods such deep learning for analysis of proteomics data and classification of cancer profiles.
Acquaintance with immunotherapy concepts and neoantigen targeting.

Since the position involves close interaction with several researchers, emphasis is placed on personal skills such as:

Very good collaborative skills
Excellent communication skills and analytical skills.

Bases of assessment

In assessing the candidates, suitability for the position, experience in the above specified methods, and experience in the field, will form the basis for the selection of this recruitment.

Qualifications

PhD in bioinformatics, computer science, biology, medicine, or mathematical statistics.
Several years of postdoctoral or industry experience in cancer research and analyses of large-scale multi-omics cancer data.
Proven experience in development of bioinformatics tools and software packages.
Expertise in developing scalable and computational workflows for protegenomics analysis.
In-depth knowledge in NGS data processing from whole genome sequencing and RNA-seq, knowledge in single cell RNA-seq and spatial transcriptomics is a plus.
Solid knowledge in Mass-spec proteomics and proteogenomics data analysis and interpretation.
Substantial experience working in bash scripting and HPC Linux/Unix environment.
Proficiency in programming (preferably, Python and SQL).
Very good knowledge of cancer biology and translational cancer research.
Experience of collaboration between different disciplines and providing bioinformatics support.
Experience of implementational research.
A proven academic track record, including high-impact and highly cited publications.
Good knowledge in English, oral and written.

Additional merits

Expertise in web programming and web application development.
Expertise in managing large amounts of data by designing structured databases (PostgreSQL, MySQL).
Machine learning methods such deep learning for analysis of proteomics data and classification of cancer profiles.
Acquaintance with immunotherapy concepts and neoantigen targeting.

Since the position involves close interaction with several researchers, emphasis is placed on personal skills such as:

Very good collaborative skills.
Excellent communication skills and analytical skills.

Bases of assessment

In assessing the candidates, suitability for the position, experience in the above specified methods, and experience in the field, will form the basis for the selection of this recruitment.

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.

Application

Welcome to apply at the latest March 4th.

The application is to be submitted through the Varbi recruitment system.In this recruitment, you will apply with your CV without a personal letter. Instead, you will answer some questions about why you are applying for the job in the application form.

Permanent position is initiated by a six months trial period.

Want to make a difference? Join us and contribute to better health for all