ProteoMill

ProteoMill performs integrated proteomics data analysis by combining identifier conversion, quality control, differential expression, and network- and pathway-based functional analysis to support identification of molecular mechanisms and differentially expressed proteins.

Key Features:

• Comprehensive Workflow Integration: Integrates data-upload, identifier conversion, quality control, differential expression analysis, and network-based functional analysis into a single analytical workflow.
• Up-to-Date Annotation Data: Maintains current annotation data sources for functional and pathway analyses.
• Seamless Integration of R Packages: Integrates multiple R packages to execute analytical tasks for proteomics data.
• Differential Expression and Network Analysis: Supports differential expression, pathway, and network analyses to explore molecular events underlying disease states and identify differentially expressed proteins.

Scientific Applications:

• Exploratory proteomics analysis: Incorporates biological knowledge into omics datasets for exploratory data analysis.
• Molecular mechanism investigation: Investigates molecular mechanisms underlying disease states.
• Differential expression and pathway discovery: Identifies differentially expressed proteins and associated pathways in specific conditions.
• Network-based functional analysis: Performs network analyses to understand protein interactions and their biological implications.

Methodology:

Performs identifier conversion, quality control, differential expression analysis, pathway and network-based functional analysis, and leverages integrated R packages and up-to-date annotation data.