Experienced Bioinformatician with on HIV bioinformatics and microbiome

Karolinska Inst - Huddinge

Do you want to contribute to top quality medical research?

Department of Medicine, Huddinge
The Department of Medicine, Huddinge, conducts preclinical and clinical research in a variety of areas and undergraduate and graduate education.

The department is internationally oriented and consists of seven units with a total of nearly 60 research groups, including three research centres.

Division
The Division of Infectious Diseases conducts preclinical, translational, clinical and epidemiological research projects. Its laboratory is located within the newly build facilities at Alfred Nobels Allé 8 (ANA Futura Laboratory), Campus Flemingsberg, Karolinska Institutet. The announced position will be placed in Professor Anders Sönnerborgs research group, which has a focus on pathogenesis, antiretroviral treatment, including HIV drug resistance, and HIV epidemiology including the role of the microbiome in the pathogenesis. The group is working closely with research groups at the Division of Clinical Microbiology KI and beyond. The day-to-day activities are often integrated. The translational research is a strong component involving basic molecular, virological and immunological investigations with close ties to the HIV Unit at the Department of Infectious Diseases, Karolinska University Hospital. Prof Sönnerborg is involved in several international collaborations with focus on HIV, Covid-19 and microbiome. We publish 10-15 well cited (current h-index 60), articles per year in renowened journals. Sönnerborgs group consists presently of two senior researchers, three post-docs, one research assistant and one PhD-student. The bioinformatician will work in close collaboration with all members of respective team.

Duties
We are looking for one highly ambitious and experienced bioinformatician with solid knowledge in bioinformatics/computational biology to join our team. The position aim towards proteo-transcriptomics studies to execute novel bioinformatics and statistical methods and multiparametric proteotranscriptomics analysis to identify biomarkers, map intercellular pathways of in their relation to novel antiviral drugs, as well as the importance of the gut microbiota for viral persistence and pathogenesis, including both HIV and CoV-2 infections. An important line of research is bioinformatics with regard to HIV phylogenetics for analysis of different HIV-1 subtypes over the globe and novel drug resistance mutational patterns. The candidate should have a strong background in bioinformatics and experience of translational research. Knowledge about HIV and/or other viral infections is a great assess. Also experience on analysis of the microbiome is important.

Mastery of the core concepts of Bioinformatics is expected. These include (a) advanced methods in computational biology towards the machine learning in medical science, (b) knowledge and awareness of the basic principles and concepts of biology, computer science and mathematics, (c) the design and implementation of relational databases, and (e) the construction of predictive mathematical models of biological systems. The person is expected to analysis large amount of omics data mainly transcriptomics and proteomics.

Entry requirements
The candidate must have experience in the field of systembiology

We seek a highly motivated candidate with a demonstrated record of scientific excellence.

The candidate should also have

  • The applicant should have second-cycle background in genetics and/or bioinformatics.
  • Interest and prior experience in transcriptomics and mass-spectrometry based proteomics analysis are essential. Provide github account details.
  • The applicant should have strong competence in Python, R-programming language and network analysis (e.g. Cytoscape). Preferences will be given who have experience in protein structure analysis.
  • Experience of analysis of HIV or other viral diseases as well as microbiota
  • The applicant should be able to work well in a multidisciplinary team, as well as having the ability to work independently.
  • The applicant should possess good organizational skills and know how to multitask.
  • Excellent communication skills in both spoken and written English is of utmost importance.
We welcome a creative, hardworking and enthusiastic team-player to our group. The candidate is expected to take part in experimental design, experimentation, presentations, and preparation of publications. The successful candidates will be expected to actively seek funding with the assistance of the PI.

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: Flemingsberg

https://ki.se/en/medh/department-of-medicine-huddinge

Application process
Welcome to apply at the latest 2021-08-19.

An employment application must contain the following documents in English or Swedish:

  • A complete curriculum vitae, previous academic positions, academic title, current position, academic distinctions, and committee work
  • A complete list of publications
  • A summary of current work (no more than one page)
The application is to be submitted through the Varbi recruitment system.
Permanent position is initiated by a six months trial period.

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