Computational Metabolomics Scientist (LC-MS/QTOF)

CMF - Center for Molecular Fingerprinting; Garching bei München; Vor Ort; EUR 70.000 - 110.000; Vollzeit

Zusammenfassung

Center for Molecular Fingerprinting (CMF) in Germany seeks an experienced MS-based omics data processing scientist to lead raw data preprocessing and QC workflows for large-scale metabolomics and proteomics analyses.

You'll develop automated pipelines, apply untargeted LC-MS processing, feature detection and QC strategies, and collaborate with laboratory scientists to ensure high-quality datasets ready for biological interpretation.

Qualifikationen

• PhD in Metabolomics, Proteomics, Analytical Chemistry, Bioinformatics, or related field, or equivalent industrial experience.
• Hands-on LC-MS-based omics data processing experience.
• Strong knowledge of XCMS and MZmine for feature extraction.
• Familiarity with statistics and data quality assessment.
• Excellent analytical and problem-solving skills.
• Good communication skills and fluency in English.

Aufgaben

• Develop and optimize untargeted LC-MS data processing workflows delivering high-quality datasets.
• Perform feature detection, alignment, normalization, and feature selection.
• Design and implement QC strategies using internal standards.
• Monitor analytical performance and coordinate with lab scientists to ensure reproducibility.
• Contribute to automation of data analysis pipelines.

Kenntnisse

LC-MS data processing

XCMS/MZmine

Statistical analysis

Analytical chemistry

English fluency

Ausbildung

PhD in Metabolomics/Proteomics/Analytical Chemistry/Bioinformatics or equivalent

Tools

XCMS

MZmine

Jobbeschreibung

Join a high-throughput mass spectrometry (MS)-based omics platform analyzing more than 100,000 human plasma samples as part of a major European population health initiative.

The Center for Molecular Fingerprinting (CMF, www.cmf.hu ), led by the 2023 Nobel Laureate in Physics Prof. Dr. Ferenc Krausz, is an interdisciplinary, nonprofit research institution. We are an international team of laser scientists, molecular biologists, medical doctors, engineers, and data analysts who came together driven by a common goal: moving the frontiers of health monitoring and probing human health. Our mission is driven by the vision of a reliable, cost-effective approach to safeguard the health of whole populations and develop new ways for the earliest possible detection of diseases such as cancer, cardiovascular disease, and diabetes.

As part of our groundbreaking H4H (Health for Hungary - Hungary for Health) Program, we are building one of the most ambitious longitudinal health monitoring initiatives in Europe. Over a 10-year period, biofluid samples are being collected from thousands of volunteers to enable large-scale molecular profiling and early disease detection.

To support this effort, CMF is establishing a large-scale metabolomics and lipidomics platform for the analysis of human plasma samples. Over the next three years, more than 100,000 plasma samples will be analyzed using a high-throughput LC–MS platform consisting of seven Waters G3 QTOF mass spectrometers.

We are looking for an experienced MS-based omics data processing scientist to lead our raw data preprocessing and quality control workflows through the generation of analysis-ready datasets. This role is ideal for someone with a strong background in LC-MS metabolomics data analysis who enjoys developing robust, automated data processing pipelines for routine sample analysis.

Your responsibilities

• Develop and optimize untargeted LC-MS raw data processing workflows delivering high-quality datasets for downstream biological interpretation for large-scale metabolomics datasets (sample size n>100,000) and proteomics datasets.
• Perform feature detection, alignment, normalization, and feature selection using software such as XCMS and/or MZmine.
• Design and implement quality control strategies using isotope-labelled internal standards.
• Monitor analytical performance and establish QC acceptance criteria. Collaborate closely with our skilled laboratory scientists and analytical chemists to ensure reliable, reproducible, and high-quality mass spectrometry data.
• Contribute to the continuous improvement and automation of routine data analysis pipelines.

Your profile

• PhD in Metabolomics, Proteomics, Analytical Chemistry, Bioinformatics, or a related discipline, or equivalent industrial experience.
• Hands-on experience with LC-MS-based omics data processing.
• Strong knowledge of XCMS/MZmine, or comparable metabolomics software for feature extraction.
• Familiarity with statistical analysis and data quality assessment.
• Excellent analytical and problem-solving skills.
• Good communication skills and fluency in English.
• Not required, but a plus: Experience designing and implementing QC procedures using stable isotope-labelled standards.

We offer

• The opportunity to help build a state-of-the-art, high-throughput metabolomics facility from the ground up.
• A dynamic work environment with the opportunity to engage in a rapidly evolving and innovative field.
• A collaborative and international working environment.
• A permanent, full-time position with opportunities to shape laboratory workflows and quality standards.
• A solution-oriented atmosphere with the chance to contribute to the success of a dynamic and growing organization.

Application Deadline: 05 Sept 2026