PhD Position in Bioinformatics/Cheminformatics

Project description

The metabolome of microbial consortia reflects not only their species composition but also the state of the community. Research in this field is significantly complicated by the fact that most of the metabolites exuded and stored by the interaction partners remain unknown.
Here we propose to investigate the combination of metabolomic and transcriptomic data based on a multi partner consortium composed of algae and bacteria model strains recently established by collaborating experimental groups to predict a virtual metabolome through the application of enzymatic reactions (based on the transcriptomic data) on the core metabolome of the organism.

We expect

• An MSc (or equivalent) in Bioinformatics, Cheminformatics or a topic in the natural sciences (Microbiology, Molecular Biology, Biochemistry or closely related fields) with a strong programming and informatics background. Candidates in the final stages of obtaining their degree are eligible to apply
• Desirable methodological skills: excellent background in metabolomic and/or transcriptomic analyses, experience with bioinformatic tools and data modeling.
• A good understanding of microbial biology or biochemistry.
• Skills in at least one modern programming language, an object oriented language is a plus.
• Desire to learn and work with modern technologies (such as Docker, cloud computing and noSQL databases) and apply them in the life sciences domain.
• Highly motivated individuals with an interest in joining one of the interdisciplinary research areas of the Microverse Cluster
• The ability to work creatively and independently towards developing your own research project
• An integrative and cooperative personality with enthusiasm for actively participating in the dynamic Microverse community
• Excellent English communication skills, both written and spoken

About the cluster

The Cluster of Excellence “Balance of the Microverse” of the Friedrich Schiller University Jena, Germany, combines expertise in life, material, optical and computational sciences to elevate microbiome studies from descriptive to hypothesis-driven and functional analyses. Our core mission is to elucidate fundamental principles of the interactions and functions in microbial communities in diverse habitats ranging from oceans and ground water to plant and human hosts. We aim to identify the shared characteristics of disturbed or polluted ecosystems as well as infectious diseases on the microbiome level and develop strategies for their remediation by targeted interventions. Our full spectrum of expertise in the physical and life sciences will be leveraged to address these important issues in natural habitats as well as synthetic arenas in a collaborative manner. The affiliated early career program of the Jena School for Microbial Communication (JSMC) offers an ambitious, structured and interdisciplinary graduate training based on top-level fundamental research.

We offer

• A highly communicative atmosphere within an energetic scientific network providing top-level research facilities
• A comprehensive mentoring program and soft skill courses for early career researchers
• Jena – City of Science: a young and lively town with a vibrant local cultural agenda

The three and a half year Doctoral researcher position (65% TV-L E13) will be funded through the Excellence Strategy of the German federal and state governments, the Carl Zeiss Foundation or the German Academic Exchange service. The Friedrich Schiller University Jena is an equal opportunity employer. Disabled persons with comparable qualifications will receive preferential status.

Applications are exclusively accepted via the JSMC Online Application Portal:

Please familiarize yourself with the application process as described in the Online Application Portal. Selected applicants will be invited to a recruitment meeting in Jena on 10-11 April or 15-16 May 2019. Awarding decisions will be announced shortly thereafter, and candidates are expected to be available to start their projects in the first half of 2019.

Application deadline: 20th March 2019