CEDAR

CEDAR provides centralized storage, MIACE-standardized reporting, and programmatic access to complexome profiling fractionation data derived from biochemical separation coupled to mass-spectrometry-based quantitative proteomics to enable analysis of protein complex composition and dynamics.

Key Features:

• Centralized Data Repository: Centralized repository for mass spectrometry-derived complexome profiling fractionation profiles and associated metadata.
• Standardized Reporting Format: Implements the MIACE (minimum information required for a complexome profiling experiment) standard for data and metadata formatting to ensure consistency and interoperability.
• REST API: Exposes a REST API for programmatic data retrieval and integration into automated analysis workflows.
• Profile Viewer and Analytical Tools: Provides a profile viewer that permits inspection of complexome fractionation profiles, detection of correlated profiles, and inference of potential protein complexes.

Scientific Applications:

• Protein complex composition and dynamics: Use fractionation profiles from biochemical separation and quantitative proteomics to analyze protein complex composition and assembly or disassembly dynamics.
• Comparative and reuse analyses: Enable reuse and cross-study comparison of complexome datasets for experimental validation and hypothesis testing.
• Computational inference of interactions: Support inference of protein–protein interactions and protein complexes through correlation analysis of fractionation profiles.
• Disease and cellular mechanism studies: Facilitate investigation of altered protein complex architectures in cellular processes and disease mechanisms.

Methodology:

Data are stored in MIACE format, exposed via a REST API, and analyzed using a profile viewer that inspects fractionation profiles, detects correlated profiles, and supports inference of potential protein complexes.