PeptideAtlas

PeptideAtlas: Mapping the Protein Universe

In the complex landscape of proteomics research, PeptideAtlas stands as a vital resource that compiles and reanalyzes mass spectrometry-based proteomics data to create a comprehensive view of organisms' proteomes.

Core Components

1. Data Repository Content Types:

• Observed peptides
• Protein identifications
• MS/MS spectra
• Transition lists
• SRM assays
• PTM information

2. Analysis Tools Built-in Features:

• BLAST search
• Peptide viewer
• Protein viewer
• SRMAtlas integration
• Statistical analysis
• Data visualization

Key Functionalities

1. Data Access Search Options:

• Peptide sequences
• Protein identifiers
• Genomic coordinates
• Spectral libraries
• SRM transitions
• PTM patterns

2. Research Tools Analysis Features:

• Proteome coverage
• Peptide uniqueness
• PTM mapping
• Transition selection
• Assay design
• Statistical validation

Applications

1. Discovery Proteomics

• Proteome mapping
• PTM identification
• Protein validation
• Coverage analysis
• Method development

2. Targeted Proteomics

• SRM assay design
• Transition selection
• Method optimization
• Validation studies
• Quantification strategies