Bioinformatics

Removing the Hidden Data Dependency of DIA with Predicted Spectral Libraries

Abstract Data-independent acquisition (DIA) generates comprehensive yet complex mass spectrometric data, which imposes the use of data-dependent acquisition (DDA) libraries for deep peptide-centric detection. Here, it is shown that DIA can be …

The HUPO-PSI standardized spectral library format

More and more proteomics datasets are becoming available in public repositories. The knowledge embedded in these datasets can be used to improve peptide identification workflows. Spectral library searching provides a straightforward method to boost …

MS²PIP: Predicting peptide spectrum peak intensities to improve proteomics identification

MS²PIP : fast and accurate MS² peak intensity prediction for multiple fragmentation methods, instruments and labeling techniques

An important step in high-throughput mass spectrometry-based proteomics is the correct identification of peptide MS² fragmentation spectra. Due to incomplete understanding of the fragmentation process and unpredictable machine noise, matching MS² …

Fast and accurate MS² peak intensity prediction for multiple fragmentation methods, instruments and labeling techniques

Awards: Best presentation

Fast and accurate MS² peak intensity predictions for multiple fragmentation methods, instruments and labeling techniques

Awards: Best presentation

MS² peak intensity prediction for specific PTMs, fragmentation techniques and instruments

Awards: 2nd best presentation