CytoPheno

CytoPheno automates the assignment of marker definitions and cell type names to unidentified clusters in flow and mass cytometry data by leveraging per-marker calculations, standardization processes, and ontology matching.

Key Features:

• Automated Marker Assignment: Performs per-marker calculations to assign markers as positive or negative based on post-clustered expression data.
• Ontology Standardization: Standardizes marker names to match Protein Ontology identifier terms.
• Cell Type Matching: Matches marker descriptions to cell type names within the Cell Ontology.
• Benchmark Validation: Each component was tested with benchmark data to demonstrate performance.

Scientific Applications:

• Flow Cytometry Phenotyping: Assigns marker definitions and cell type names to unidentified clusters from flow cytometry data.
• Mass Cytometry Phenotyping: Assigns marker definitions and cell type names to unidentified clusters from mass cytometry data.

Methodology:

Post-clustered expression data undergoes per-marker calculations to assign markers as positive or negative, followed by standardization of marker names to Protein Ontology identifier terms, and matching of marker descriptions to cell type names within the Cell Ontology.