zMAP

zMAP compares multiple proteomic profiles and performs downstream functional analysis by utilizing a variance-stabilizing z-transformation to account for mean-variance dependencies in isobaric labeling-based mass spectrometry data.

Key Features:

• Cross-run intensity comparability: zMAP makes isobaric labeling-based mass spectrometry intensities comparable across mass spectrometry runs by modeling the associated mean-variance dependence.
• Variance-stabilizing z-transformation: zMAP applies a variance stabilizing z-transformation to account for mean-variance dependencies in isobaric labeling-based mass spectrometry data.
• Downstream functional analysis: zMAP performs downstream functional analysis on the transformed proteomic data.

Scientific Applications:

• Cell differentiation dynamics: zMAP demonstrates practical utility in case studies involving the dynamics of cell differentiation.
• Cancer patient heterogeneity: zMAP demonstrates practical utility in case studies involving heterogeneity across cancer patients.
• Large-scale proteomic data integration: zMAP integrates isobaric labeling-based mass spectrometry samples across multiple mass spectrometry runs.

Methodology:

zMAP models the mean-variance dependence associated with isobaric labeling-based mass spectrometry intensities and applies a variance stabilizing z-transformation accordingly.