FLASHQuant

FLASHQuant performs fast, automated resolution and quantification of coeluting proteoforms from MS1-level label-free quantification data in top-down proteomics.

Key Features:

• Automated Proteoform Resolution: FLASHQuant automatically resolves overlapping signals from multiple coeluting proteoforms without requiring prior knowledge of the sample composition.
• Label-Free Quantification: FLASHQuant operates on MS1-level data, requiring no additional costly labeling reagents for proteoform quantification.
• High Speed: FLASHQuant achieves runtimes of just a few minutes per LC-MS run while maintaining high accuracy and reproducibility.
• ConsensusFeatureGroupDetector: FLASHQuant is accompanied by a simple alignment algorithm for multiple LC-MS runs.

Scientific Applications:

• Proteoform Quantification: FLASHQuant enables accurate quantification of individual proteoforms to identify proteome-wide alterations across different biological conditions.
• Spike-in Protein Analysis: FLASHQuant was validated using spike-in protein benchmark tests demonstrating high quantification accuracy.
• Proteome-Level Mixture Analysis: FLASHQuant was benchmarked on proteome-level mixture data sets, showing that resolving overlapping proteoforms boosts quantification accuracy.

Methodology:

FLASHQuant uses a fast algorithm for MS1-level label-free quantification analysis in top-down proteomics, with benchmark validation performed using both spike-in proteins and proteome-level mixture data sets.