Cloud engineer and bioinformatician at DKFZ in Heidelberg, working on GHGA — Germany’s national infrastructure for sharing sensitive human genomic data.
My background is in computational biology (PhD on tRNA modifications and protein turnover), but I’ve spent the last few years moving closer to the infrastructure side: cloud platforms, data pipelines, and bioinformatics workflows at scale.
- Genomics infrastructure — secure data storage, access control, and processing of omics data following GA4GH standards
- Trusted research environments — building cloud-based TREs that let researchers work with sensitive genomic data without it ever leaving a controlled environment
- Bioinformatics pipelines — Nextflow, Dataflow, and whatever the data actually needs
- Cloud & DevOps — AWS / GCP, Terraform / Pulumi, containers, CI/CD
- Proteomics tooling — maintaining open source libraries for mass spectrometry data
Proteomics / mass spectrometry
| Repo | What it does |
|---|---|
| pymzml/pymzML | Python interface for mzML mass spectrometry files — published in Bioinformatics 2018 |
| computational-ms/pyiohat | I/O handler for peptide search engine results |
| computational-ms/unify_idents | Unifies peptide identifications across search engines |
| ursgal/ursgal | Wrapper framework for proteomics tools |
| computational-ms/unimod-mapper | UniMod modification mapping |
| LeidelLab/SMITER | Synthetic mzML writer for benchmarking — published in Genes 2021 |
| computational-ms/chemical-composition | Chemical formula handling for mass spec |
| pyqms/pyqms | Fast mass spectrometry quantification |
Parameter & metadata tooling
| Repo | What it does |
|---|---|
| urgap/urgap | Unified resource governance and data provenance |
| uparma/uparma-lib | Unified parameter mapper for bioinformatics tools |
| uparma/uparma-py | Python client for uparma-lib |
Infrastructure
| Repo | What it does |
|---|---|
| ghga-de/charts | Helm charts for GHGA Kubernetes infrastructure |
Rust. Slowly.
If you work on TREs, genomics data infrastructure, or computational mass spectrometry and want to exchange ideas, feel free to reach out.