Analyzing data independent acquisition mass spectrometry with noiseless ion-networks
Willems, S.; Daled, S.; Van Puyvelde, B.; De Clerck, L.; Vande Casteele, S.; Van Nieuwerburgh, F.; Deforce, D.; Dhaenens, M.
Show abstract
Data-independent acquisition (DIA) mass spectrometry (MS) has introduced deter-ministic, periodic and simultaneous acquisition of all fragment ions. Despite the chimeric side-effects associated with this unprecedented data integrity, DIA data analysis approaches still use conventional spectra and extracted ion chromatograms (XICs) that represent individual precursors and fragments. Here, we introduce ion-networks, an alternative data format wherein nodes correspond to reproducible fragment ions from multiple runs and edges correspond to consistent co-elution. Each ion-network represents a complete experiment and computationally eliminates chimericy based on reproducibility without sacrificing data integrity.
Matching journals
The top 4 journals account for 50% of the predicted probability mass.