pSCoPE

pSCoPE prioritizes and analyzes peptides across single cells to increase sensitivity, data completeness, and proteome coverage for single-cell proteomics studies.

Key Features:

• Prioritized Peptide Analysis: Analyzes thousands of prioritized peptides consistently across every single cell to increase data completeness and consistency.
• Maximized Instrument Time Utilization: Allocates instrument time to identifiable peptides to enhance proteome depth within each cell.
• Increased Sensitivity and Coverage: Achieves more than twofold improvements in sensitivity, data completeness, and proteome coverage, enabling detailed quantification of protein variation between conditions such as untreated versus lipopolysaccharide-treated primary macrophages.
• Functional Covariation Analysis: Identifies proteins that covary within functional sets, including phagosome maturation and proton transport, to link protein covariation to phenotypic variability such as endocytic activity.
• Quantification of Proteolytic Products: Quantifies proteolytic products to reveal enzymatic activity gradients, exemplified by cathepsin gradients within specific treatment conditions.

Scientific Applications:

• Single-cell proteomics: Enables detailed single-cell proteomic analysis with high proteome coverage while prioritizing peptides of interest.
• Macrophage response studies: Characterizes protein expression and modification dynamics in primary macrophages, including comparisons of untreated and lipopolysaccharide-treated conditions.
• Functional covariation studies: Detects covariation within functional protein sets such as phagosome maturation and proton transport to investigate phenotypic variability like endocytic activity.
• Proteolytic activity and PTM analysis: Quantifies proteolytic products to study post-translational modifications and protein degradation pathways, exemplified by cathepsin gradients.

Methodology:

pSCoPE applies a dual strategy of prioritized peptide analysis across all single cells combined with allocation of instrument time to identifiable peptides.