PAWER

PAWER performs preprocessing, differential expression analysis, and functional enrichment of protein microarray data to characterize activity levels of thousands of proteins in proteomics studies.

Key Features:

• Integrated workflow: Consolidates preprocessing, differential expression analysis, and functional enrichment into a single analysis workflow for protein microarray data.
• Preprocessing: Implements data-quality preprocessing steps for protein microarray measurements.
• Differential expression analysis: Detects proteins with statistically significant changes in activity across experimental conditions.
• Functional enrichment analysis: Links sets of differentially expressed proteins to biological functions and pathways.
• R package: Provides an R package for programmatic access and customizable computational analyses.
• Visualization: Generates publication-ready illustrations of protein microarray analysis results.

Scientific Applications:

• Proteomics: Characterizing protein activity levels across large-scale protein microarray datasets.
• Differential expression analysis: Identifying proteins that change significantly between experimental conditions.
• Functional enrichment: Interpreting differential protein lists by mapping them to biological functions and pathways.

Methodology:

The methodology comprises preprocessing of protein microarray data, differential expression analysis, and functional enrichment analysis.