Sipros

Sipros performs database searching to identify proteins and their post-translational modifications and, in conjunction with ProRata, supports label-free, isobaric chemical labeling, and metabolic labeling quantification for proteomics studies.

Key Features:

• Sipros 3.0: Database-searching algorithm for accurate protein identification across various proteomics measurements.
• Post-Translational Modification (PTM) searches: Supports broad-range PTM searches to identify protein variants and modifications.
• Scalable architecture: Hybrid Message Passing Interface/OpenMP parallelism enabling computations from desktops to supercomputers.
• ProRata 3.0: Quantification capabilities including label-free, isobaric chemical labeling, and metabolic labeling quantification.
• Integration with Sipros: ProRata complements Sipros by providing quantitative analysis linked to identification results.

Scientific Applications:

• Protein identification and variant characterization: Accurate detection of proteins and PTMs for studies of protein expression and function.
• Quantitative proteomics: Comparative quantification across label-free, isobaric chemical labeling, and metabolic labeling experimental designs.
• Protein interaction and network analysis: Identification and quantification results to support investigations of protein interactions and network-level changes.

Methodology:

Performs database searching with broad-range PTM support and employs hybrid Message Passing Interface/OpenMP parallelism as parallel computing techniques to scale across desktops and supercomputers for large proteomics datasets.