Metabolomics and lipidomics data analysis platform for medical research (PhD)

Open position for a PhD student at the ZD.B-Junior Research Group LipiTUM (TV-L, E13, 100%, 3 years).  

​​​​​​​LipiTUM is part of the TUM School of Life Sciences located at the Wissenschaftszentrum Weihenstephan (WZW) in Freising, Germany. We are developing computational aids to bring the young and surging field of lipidomics to the playbook of systems medicine methods. The establishment of lipidomics and metabolomics as a third dimension in addition to genomics and proteomics is key to achieve precision medicine workflows that are targeted to and benefit groups of patients with common, distinct molecular signatures. This approach is not based on symptoms-based clinical anamneses but allows for novel molecular disease classifications and patient stratification as well as targeted treatment prediction.

Activities and responsibilities

Scientific background: We are currently observing an ongoing shift in approaching disease definitions and classification. Patient information and disease patterns have long been obtained via clinical anamneses of symptoms with great success. Today, research has shown that complementing traditional diagnostic procedures with patient-specific molecular signatures provides improved mechanistic understanding paving the way towards targeted treatment options. These signatures are commonly derived from quantitative genomics and proteomics analysis of aberrant tissue. However, there is a third, very important biomolecule, lipids, that are being mostly overlooked in today's systems medicine research. Lipids are the major constituents of biomembranes that create different cellular compartments to make multi-cellular life possible. In addition, they are a major carbon source and provide energy to organisms but they also play various roles in signaling cascades, e.g. in pain and inflammatory reactions. Therefore, as a PhD student in my research group LipiTUM you will contribute to overcome current technical and computational obstacles to bring lipids to the forefront of systems medicine complementing genes and proteins as a third dimension.

Project description: We are looking for a skilled and motivated PhD student to contribute to develop and establish an IT platform to automate and standardize data analysis and mining focusing on metabolomics and lipidomics data for medical research. We seek strong expertise in software development to create a medical data integration platform that enables harmonization and analysis of mass spectrometry data from various different experimental setups. The respective candidate will integrate pipelines for systematic analysis, quality control, statistical processing and quantification of heterogeneous experimental lipid and metabolic profiles from mass spectra (from spectra to lipidomes). Moreover, we seek expertise in creating publicly available online-resources such as databases as well as web-applications. These methods will facilitate knowledge extraction, biomarker discovery and hypothesis generation in a systems medicine framework.

Qualification profile

Your qualifications: Candidates hold a Master degree (M.Sc. or equivalent) in bioinformatics, medical informatics, computational biology, biotechnology, computer science, or data science. They are motivated and open-minded, and eager to acquire secondary skills in molecular biology, human physiology, mass spectrometry and has had insights into multi-omics data analysis. This project requires solid technical and software-engineering skills using Java and R. Candidates are actively engaging in interdisciplinary collaborations and team-work and have strong communication skills (fluency in scientific English written and spoken). Having basic knowledge of any of the following research areas will benefit your application: mass spectrometry, proteomics, metabolomics, lipidomics, biochemistry, molecular biology.

Application: Applicants are asked to submit a single pdf-file to the contact person (see below). This pdf-file includes the following documents:
  • Cover letter
  • Curriculum vitae
  • Copies of academic degrees, certificates, and transcripts of record
  • Two letters of recommendation including their authors' contact information
  • Publication list with DOI-links (do not include your published articles in the pdf-file)

Send application to

Contact person: TUM Junior Fellow Dr. Josch Konstantin Pauling <application(at)lipitum.de>

http://www.lipitum.de

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About TUM - Experimental Bioinformatics

The Technical University of Munich (TUM) is one of Europe’s top universities. It is committed to excellence in research and teaching, interdisciplinary education and the active promotion of promising young scientists. The university also forges strong links with companies and scientific institutions across the world. TUM was one of the first universities in Germany to be named a University of...
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