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Data management and functional annotation of the Korean reference plasma proteome
Seul-Ki Jeong1, Eun-Young Lee, Jin-Young Cho
1Department of Biochemistry, Biomedical Science (WCU Program), College of Life Science and Biotechnology, Yonsei Proteome Research Center, Yonsei University, Seoul, Korea.
Proteomics
|February 23, 2010
Summary
Researchers created a Korean plasma proteome database, identifying 185 unique proteins. This resource aids serological biomarker studies and understanding ethnic-specific human plasma proteomes.
Area of Science:
- Biochemistry
- Proteomics
- Bioinformatics
Background:
- Human plasma reference data is crucial for serological biomarker discovery.
- Previous proteomic studies have not comprehensively cataloged ethnic-specific plasma proteins.
Purpose of the Study:
- To establish a reliable protein catalog of the Korean plasma proteome.
- To create the first publicly available, single ethnic group-specific plasma proteome database.
Main Methods:
- Utilized multi-dimensional chromatography (1-D HPLC, 2-D LC, 2-DE) coupled with mass spectrometry (MALDI-TOF, LC-MS/MS).
- Employed dual search engines and stringent criteria (False Discovery Rate ≤ 1%) for high-confidence protein identification.
- Integrated identified proteins with bioinformatics analyses (gene ontology, pathways, tissue expression, disease association).
Main Results:
- Initially identified 494 distinct Korean plasma proteins.
- After rigorous filtration, 185 unique plasma proteins were confirmed.
- Established the Korean Human Plasma Proteome Project database (http://proteomix.org/khppp/).
Conclusions:
- The Korean Human Plasma Proteome Project database provides a valuable resource for biomedical research.
- This ethnic-specific proteome data can advance understanding of human plasma protein variations and biomarker discovery.
