Visual Universitätsmedizin Mainz

Bioinformatician (m/f)

and

Post-Doctoral fellow position (m/f)

Brain tissue is characterized by its complex composition of a multitude of cell types ranging from different neuronal types to glia and epithelial cells. The difficulty to manipulate the various cell types specifically and independently is a major obstacle for both, basic research as well as therapeutic approaches.

Development of cell type-specific viral vectors for gene targeting

The aim of an intersecting, joint project of the Institute of Molecular Biology gGmbH and the University Medical Center together with a partner from the pharmaceutical industry is to develop a new generation of viral vectors that enable cell type-specific expression of genes of interest. To that goal, we will apply massive parallel screening approaches for genomic regulatory elements in vivo together with an in-depth bioinformatics analysis on the regulatory mechanisms of cell type-specific gene regulation.

The Institute of Molecular Biology gGmbH (IMB) is a Centre of Excellence for Life Sciences funded by the Boehringer Ingelheim Foundation and located within the campus of the University of Mainz in Germany. IMB focuses on epigenetics, DNA repair and developmental biology and offers premium scientific core facilities (see www.imb-mainz.de/core-facilities).

The University Medical Center of the Johannes Gutenberg University Mainz has more than 60 clinics, institutes and departments making it the only facility of its kind in Rhineland-Palatinate. For more than 7500 employees, healthcare, research and teaching are intrinsically linked.

To complement our project team, we are looking to fill two positions:

Bioinformatician (m/f) (#CFBIO11)

The Bioinformatics Core Facility of the IMB performs high-throughput data processing, analysis, visualisation and interpretation; it provides IT infrastructure as well as teaching and consulting services.

You will:

 Join an exciting collaborative project, exploring regulatory DNA elements in the mouse brain

 Participate in the experimental planning, processing, analysis and publication of various next-generation sequencing (NGS) datasets

 Develop custom bioinformatics workflows for data analysis and integration

Required qualifications:

 University degree or postgraduate training in computational biology / bioinformatics

 Extensive (2+ years) experience in the analysis of NGS data, particularly ChIP-seq and RNA-seq

 Solid programming skills and familiarity with Linux compute clusters

 Sound knowledge of statistics, version control and R / Bioconductor

 Proficiency in written and spoken English

 Good organisational, communication and interpersonal skills

Desirable qualifications:

 Experience in interdisciplinary collaborations

 Familiarity with contemporary biomedical research topics

 Knowledge of software engineering and bioinformatics pipelines

IMB offers:

 Stimulating, diverse and international research environment

 Flexible working hours and advanced training opportunities

 Competitive salary and favourable pension scheme

IMB is an equal opportunity employer. Applications should be in English and sent as a single PDF file including a cover letter, CV, certificates and contact information of at least two professional references quoting Ref. No. CFBIO11 to personal@imb-mainz.de.

Post-Doctoral Fellow (m/f)

The laboratory of Prof. Simon Rumpel is part of the Institute of Physiology at the University Medical Center of the Johannes Gutenberg University Mainz, Germany (http://www.unimedizin-mainz.de/agrumpel).

You will:

 Join an exciting collaborative project with translational relevance

 Apply in vivo screening methodology for functional testing of genomic elements controlling cell type-specific expression

 Develop a pipeline for validation of virus-mediated expression patterns in the mouse brain

Required qualifications:

 PhD in molecular biology or neuroscience

 Extensive (2+ years) experience and excellent publication record

 Excellent communication skills and enthusiasm for science

 Interest to work in a collaborative and international environment

Desirable qualifications:

 Experience in histology, image processing and / or viral vectors

 Programming knowledge in Matlab

UM Mainz offers:

 Interdisciplinary and stimulating research environment

 Flexible working hours and advanced training opportunities

 Competitive salary and favourable pension scheme

Applications should be in English and sent as a single PDF file including a motivation letter, CV, certificates, relevant publications and contact information of at least two professional references to sirumpel@uni-mainz.de.

Deadline for applications for both positions: 30 Sept. 2017

Starting date for both positions: No later than the first quarter of 2018 with an initial contract for three years, with an option for extension.

4yr Post-Doctoral fellow position

A four-year position for a post-doctoral fellow funded as part of the collaborative research center 1080 ‘Molecular and Cellular Mechanisms of Neural Homoeostasis’.

Homeostatic maintenance of neuronal function in a dynamic network

Dynamic remodeling of connectivity is a fundamental feature of neocortical circuits. As the response properties of neurons depend on the network architecture, the extent to which the cortical network reconfigures can determine the level of plasticity. However, at the same time the functional stability of cortical representations needs to be ensured over days and weeks.

The aim of this project is to unravel homeostatic mechanisms that ensure functional stability of neuronal ensembles forming auditory representations in a dynamic cortical architecture. To that goal, we will combine chronic in vivo calcium imaging in mice with pharmacogenetic manipulation of cellular excitability and assess the impact on the stability on functional cell assemblies forming auditory representations.

Applicants should have obtained a master’s degree or diploma, have excellent communication skills, and have an interest to work in a collaborative and international environment. Previous experience in physiological and imaging approaches in neuroscience are be beneficial. This project will be conducted in collaboration with Yonatan Loewenstein’s group at the Hebrew University in Jerusalem, which will complement the experimental approaches in Mainz with theoretical modeling efforts.

For further information, or to apply, please contact Simon Rumpel (sirumpel@uni-mainz.de). Applications should include a motivation letter, the applicant’s CV, publications and email addresses of 1-2 references.

3yr PhD position

A three-year position for a PhD student funded as part of the International PhD Programme (IPP) of the Institute of Molecular Biology (IMB), the Johannes Gutenberg University (JGU) and the University Medical Center (UMC).

Control of neuronal responsiveness in vivo

Neuronal representations are dynamic over periods from days to weeks. The group of neurons that is forming a functional assembly representing a sound on a given day differs from the group of neurons which will represent the same sound some days later: Individual neurons can gain or lose their responsiveness to specific stimuli. However, the underlying mechanisms controlling the responsiveness of individual neurons remains unclear.

The aim of this project is to determine mechanisms of gene regulation that control the responsiveness of cortical neurons to sensory stimuli in vivo. To that goal, we will combine chronic calcium imaging in mice with photolabeling approaches in vivo. This will allow us to functionally characterize individual neurons in vivo and perform transcriptional analyses after cell sorting. Together, these experiments will help to understand how adaptive gene regulation controls neuronal responsiveness in a functional network. 

Applicants should have obtained a master’s degree or diploma, have excellent communication skills, and have an interested to work in a collaborative and international environment. Previous experience in molecular and imaging approaches in neuroscience are be beneficial.

For more information and how to apply, go to the Webpage of the International PhD Programme (IPP).