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RaftProt: mammalian lipid raft proteome database
Anup Shah1, David Chen2, Akash R Boda1
1The University of Queensland Diamantina Institute, The University of Queensland, Translational Research Institute, Brisbane, QLD, Australia.
Nucleic Acids Research
|November 14, 2014
Summary
RaftProt is a new database that consolidates mammalian lipid raft-associated proteins from mass spectrometry studies. It offers advanced search features to analyze these crucial cellular components and their preparation methods.
Area of Science:
- Cell Biology
- Proteomics
- Bioinformatics
Background:
- Lipid rafts are essential membrane microdomains involved in cellular regulation.
- Numerous proteomics studies have investigated lipid raft composition and function.
- A centralized resource is needed to access and analyze this growing body of data.
Purpose of the Study:
- To develop a searchable database, RaftProt, for mammalian lipid raft-associated proteins.
- To facilitate the mining and analysis of data from high-throughput mass spectrometry studies.
- To provide advanced search functionalities for lipid raft research.
Main Methods:
- Compilation of mammalian lipid raft-associated proteins from mass spectrometry studies.
- Development of a searchable online database (RaftProt).
- Implementation of advanced search options including protein/gene names, cell/tissue/organism, and preparation methods (e.g., cholesterol depletion).
Main Results:
- RaftProt provides a comprehensive collection of lipid raft-associated proteins.
- The database allows basic and advanced querying of experimental data.
- It includes information on lipid raft preparation methods and high-confidence protein identification.
Conclusions:
- RaftProt serves as a valuable resource for the scientific community studying lipid rafts.
- The database aids in understanding the roles of lipid raft proteins in cellular regulation.
- Advanced features facilitate in-depth data mining and analysis of lipid raft proteomics studies.
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