Henk van den Toorn

This paper introduces a protein language model-based decoy generation method for proteomics and benchmarks it against classical decoy strategies, finding it less distinguishable by neural networks but not superior in search performance.

This study identifies immunoglobulin sub-class levels as key factors in inter-donor plasma variability using longitudinal proteomic data from two labs.

This study tracks longitudinal changes in the plasma proteome and complexome of kidney failure patients before and after transplantation, revealing acute phase protein dynamics and macromolecular complex formation during inflammation.