Mass Dynamics

Mass Dynamics analyzes label-free quantification (LFQ) data from shotgun proteomics experiments to quantify relative protein abundance and support downstream proteomic analyses.

Key Features:

• Cloud-Based Architecture: Centralized cloud infrastructure for storage and processing of large-scale LFQ proteomics data.
• MaxQuant Integration: Imports LFQ output from MaxQuant for downstream analysis.
• Automated Processing and Visualization: Automates LFQ data processing and generates visualizations.
• Quality Control Reporting: Generates comprehensive quality control reports to assess experiment integrity.
• Standardized Workflows: Applies standardized analysis workflows with minimal manual parameterization to promote reproducibility.
• Benchmark Performance: Produces quantification results comparable to Perseus on benchmark datasets across a wide dynamic range.

Scientific Applications:

• Comparative Label-Free Proteomics: Quantification and comparison of relative protein abundances across biological samples using LFQ data.
• Pathway and Gene Set Enrichment: Enables pathway and gene set enrichment analyses from quantified proteomes.
• Proteomic Quality Control and Benchmarking: Assessment and benchmarking of LFQ dataset quality and quantification performance.

Methodology:

Automated processing of LFQ data (including import from MaxQuant), generation of visualizations and quality control reports, and centralized cloud-based storage and processing.