Matthew The
Group Leader Bioinformatics Postdoctoral Researcher
Freising, Bavaria, Germany
Summary
👤
Senior🎓
Top SchoolMatthew The is a bioinformatics group leader and postdoctoral researcher with 12 years of experience building machine-learning tools for proteomics and phosphoproteomics. He combines computational and applied mathematics training with hands-on software engineering to maintain and advance key open-source projects like Percolator and contribute backend improvements to the widely used OpenMS codebase. His work spans algorithm development, FDR-aware peptide/protein identification, and practical tools such as PTMNavigator and CurveCurator for exploring modifications and drug-response curves. Based in Freising, Germany, he leads a team that turns complex mass-spectrometry data into reproducible, biologically meaningful results. Notably, he brings both academic rigor and production-grade coding—fixing integration issues, PTM notation, and default SVM scoring—to ensure research tools are robust in real-world workflows.
12 years of coding experience
5 years of employment as a software developer
Master of Science (MSc), Computational and Applied Mathematics, Master of Science (MSc), Computational and Applied Mathematics at TU BerlinMaster of Science (MSc), Computational and Applied Mathematics, Master of Science (MSc), Computational and Applied Mathematics at KTH Royal Institute of TechnologyBachelor of Science (BSc), Physics, Bachelor of Science (BSc), Physics at Leiden UniversityTU Delft
English, Dutch, German, Swedish, Danish
Github Skills (6)
c-language10
openms10
mass-spectrometry10
cprogramming-language10
proteins10
algorithms8
Programming languages (15)
Github contributions (5)
OpenMS/OpenMS
Jul 2016 - Jun 2019
The codebase of the OpenMS project
Role in this project:
Back-end Developer
Back-end DeveloperContributions:9 commits, 3 PRs, 26 comments in 2 years 11 months
Contributions summary:Matthew focused on enhancing the `PercolatorAdapter` tool within the OpenMS project. Their contributions involved modifying the codebase, including updating files like `PercolatorAdapter.cpp` and `TopPerc.cpp`, to facilitate the use of Percolator for peptide identification. The changes include merging search results, implementing peptide and protein-level FDR calculations, and addressing issues related to X!Tandem integration. They also addressed missing columns in DOC mode, fixed PTM notation, and improved the default SVM score.
openmsc-plus-plusms-datamass-spectrometrylinux
MatthewThe/livelca
Jul 2019 - Nov 2025
Contributions:10 PRs, 116 pushes, 2 branches in 6 years 5 months
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