MPA

MPA aligns and compares proteomic profiles to enable semiautomatic and fully automatic multiple comparisons of proteomic time series, including data from 2-D LC separations such as the Beckman Coulter PF2D.

Key Features:

• Pairwise and Fully Automatic Comparisons: Performs semiautomatic pairwise guided alignments and fully automatic alignments of time series proteomic data.
• Dynamic Programming Strategy: Uses dynamic programming to compute optimal alignments across proteomic profiles.
• Progressive Alignment of Time Series: Applies progressive alignment techniques to assemble multiple-profile alignments for temporal proteomic data.
• Integration with 2-D LC Systems: Accepts and complements semiautomatic protein separations from two-dimensional liquid chromatography (2-D LC) systems such as the Beckman Coulter PF2D.

Scientific Applications:

• Protein Expression Profiling: Compares proteomic profiles across conditions or time points to identify differentially expressed proteins.
• Biomarker Discovery: Aligns and compares proteomic datasets from multiple samples to support identification of candidate biomarkers.
• Functional Proteomics: Enables comparative analyses to investigate protein functions and interactions across samples or time series.

Methodology:

Implements dynamic programming and progressive alignment to perform semiautomatic and fully automatic multiple comparisons of proteomic time series.