Open positions

Student research assistant

Graduate student

Post-Doc

Student research assistant positions

We are continuously looking for student research assistants in the fields of:

  • programming of web server applications
  • programming of applications in computational biology
  • scientific journalism and public dissemination of our work

Payment will be arranged according to the FWF personnel costs table. Period of employment and the number of weekly hours are up to individual agreements (up to 10 hours per week are possible).
Students interested in computational biology and having a reasonable background in one of the fields mentioned are encouraged to apply to Thomas Rattei.

Graduate student (pre-doc) positions
From project funding we are regularly hiring graduate students working on computational biology research projects in our lab. Payment will be according to the FWF personnel costs table. If your background and interests match one of our research areas, please get in touch wih us via e-Mail to Thomas Rattei.

Graduate student (pre-doc) fellowships
Our research projects provide permanently new topics for PhD theses. We are happy to help you to apply for a PhD fellowship.

THESIS PROJECT EXAMPLE 1: ELUCIDATE TRANSLATIONAL ROUTES OF BIOACTIVE PEPTIDES

The Marx group in the division of Computational Systems Biology, Department of Microbiology and Ecosystem Science, is seeking an outstanding PhD fellow. We are a young and interdisciplinary group, with the overarching goal to devise computational tools and experimental protocols to expedite peptidomic research. As of late, peptidomics is an emerging field in mass spectrometry(MS)-based proteomics to study bioactive peptides. Bioactive peptides are pervasive across the tree of life, playing key roles in the gastrointestinal, cardiovascular, endocrine, nervous, and immune system. Of special interest to the Marx group are antimicrobial peptides, natural occurring antibiotics, in the race to fight multi-drug resistant pathogens and bioactive peptides controlling host-microbe interactions.

Bioactive peptides may originate from direct translation of small open reading frames, microRNA, mRNA UTRs, or proteolytic processing from a pro-protein. The project goal is to elucidate unusual translation start sites and protease cleavage sites for bioactive peptides from multi-protease proteomics experiments. Multi-protease experiments generate overlapping peptides that require an assembly method and statistical validation to identify mature bioactive peptides.

An ideal candidate holds a M.Sc. in bioinformatics, informatics, or related field. Experience in mass spectrometry, statistics, and machine learning are valuable, but optional. Note, a candidate is required to help secure funding via the Uni:docs Fellowship Programme of the University of Vienna or a similar funding source. Please send your curriculum vitae, a brief statement of current and future career goals and contact information of three references to harald.marx@univie.ac.at.

THESIS PROJECT EXAMPLE 2: A PEPTIDOME-CENTRIC SEARCH ALGORITHM

The Marx group in the division of Computational Systems Biology, Department of Microbiology and Ecosystem Science, is seeking an outstanding PhD fellow. We are a young and interdisciplinary group, with the overarching goal to devise computational tools and experimental protocols to expedite peptidomic research. As of late, peptidomics is an emerging field in mass spectrometry(MS)-based proteomics to study bioactive peptides. Bioactive peptides are pervasive across the tree of life, playing key roles in the gastrointestinal, cardiovascular, endocrine, nervous, and immune system. Of special interest to the Marx group are antimicrobial peptides, natural occurring antibiotics, in the race to fight multi-drug resistant pathogens and bioactive peptides controlling host-microbe interactions.

To explore the peptidome in a systematic way requires a search engine that is able to identify peptides not present in a canonical protein sequence database (search space). The project goal is to develop an efficient and highly sensitive algorithm to match MS data to a genome-scale search space to capture most peptidome constituents. This approach will also be of broad interest to the proteomics community as a tool to pre-process MS data to extract information from large search spaces as input for existing search tools.

An ideal candidate holds a M.Sc. in bioinformatics, informatics, or related field. Experience in mass spectrometry, statistics, and machine learning are valuable, but optional. Note, a candidate is required to help secure funding via the Uni:docs Fellowship Programme of the University of Vienna or a similar funding source. Please send your curriculum vitae, a brief statement of current and future career goals and contact information of three references to harald.marx@univie.ac.at.

Post-Doc positions
We encourage computational biologists in their early career (typically up to 3 years after their PhD defense or getting their PhD soon) to contact Thomas Rattei or Harald Marx for job opportunities in our labs. Numerous funding sources for post-doctoral fellowships are available:

  • The Austrian Science Funds (FWF) has several funding programmes supporting Post-doctoral fellows: Stand-alone projects for funding the own position, the Meitner programme for international researchers incoming to Austria, and several carreer development programmes for female scientists.
  • The European Research Council (ERC) offers several Marie-Curie fellowships for Europeans on non-Europeans. There are versions for Postdoctoral researches relocating within Europe (IEF), or for coming back to their home country (ERG, IRG), for example. The ERC also offers Marie-Curie fellowships for researches of any nationality, the Marie Curie International Incoming Fellowships, to finance research at a European host institution.
  • EMBO Long-Term Fellowships support post-doctoral researchers for visits up to two years. For eligibility, the applicant must move between countries and must have passed her/his PhD exam in the two years prior to the respective application deadline. Deadlines are 15 February and 15 August.
  • The Human Frontier Science Program (HFSP) offers Postdoctoral Fellowships to nationals of participating countries. These are (as of 01/2011): all EU member countries, Australia, Canada, India, Japan, New Zealand, Norway, the Republic of Korea, Switzerland, and the USA. The application deadline is typically towards the end of November.
  • FEBS Long-Term Fellowships are available for up to 3 years of postdoctoral work. Application deadlines are usually April 1st and October 1st.