Christian Panse

qg generates reproducible, configuration-driven acquisition queues for mass spectrometry with QC control and vendor-specific file output.

The paper generates a benchmark dataset to evaluate proteomics instruments and workflows using high-throughput LC gradients across multiple platforms and organisms.

ProteoBench provides a centralized platform for comparing proteomics data analysis workflows, enabling benchmarking and community collaboration.

This paper shows that Staphylococcus aureus uses both genetic and phenotypic changes to resist inhibitory molecules from Pseudomonas aeruginosa.

prolfquapp simplifies differential expression analysis in quantitative proteomics by providing a command-line tool with dynamic HTML reports and integration with existing analysis tools.

This study harmonizes quality controls across proteomics core facilities to improve data comparability and reliability through a 4-year longitudinal dataset and common processing software.

Koina provides an open-source, accessible ML/DL prediction service for proteomics, improving integration with existing tools like FragPipe.

prolfqua provides an R package for proteomics differential expression analysis with quality control, normalization, and statistical modeling, showing sensitive and specific results.

The paper introduces a web-based tool for cross-resource peptide spectrum comparison and visualization, with a focus on integration and retrieval from spectral databases.

rawR provides OS-independent access to Thermo Fisher Scientific raw files for proteomics analysis in R, with implementation details and use cases.

rawDiag is an R package that provides diagnostic plots for optimizing LC-MS methods in proteomics.

This paper introduces NestLink, a technology for simultaneous characterization of thousands of binder molecules, identifying rare binders and overcoming limitations of traditional screening methods.