Luciphor2

Luciphor2 localizes post-translational modifications (PTMs) at the peptide-site level from tandem mass spectrometry data and reports site-level localization scores with an associated false localization rate.

Key Features:

• Generic PTM Localization: Supports localization of diverse PTM types beyond phosphorylation using tandem mass spectrometry data.
• Site-Level Localization Score and False Localization Rate: Computes site-level localization scores and estimates a false localization rate to quantify localization confidence.
• Enhanced Computational Efficiency: Employs multiple threading to accelerate processing of large datasets.
• Optimal Parameter Recommendations: Provides recommended parameter settings tailored to different data types to improve localization performance.

Scientific Applications:

• PTM Site Identification in Proteomics: Enables precise assignment of modification sites from tandem mass spectrometry data in proteomic studies.
• Study of Protein Function and Regulation: Facilitates investigation of protein function, regulation, and interaction networks by providing accurate PTM site localization.
• Lysine-Acetylation Analysis: Has been applied to human skeletal muscle tandem mass spectrometry data to localize lysine-acetylation sites.

Methodology:

Computes site-level localization scores from tandem mass spectrometry data, estimates a false localization rate for those scores, and uses multiple threading for computational efficiency.