Data management and functional annotation of the Korean reference plasma proteome

Seul Ki Jeong, Eun Young Lee, Jin Young Cho, Hyoung Joo Lee, An Sung Jeong, Sang Yun Cho, Young-Ki Paik

Research output: Contribution to journalArticle

8 Citations (Scopus)

Abstract

As human plasma is clinically valuable, reference data from healthy donors can be a useful source for serological biomarker studies. To make a reliable protein catalog of the Korean plasma proteome, various experimental methods, such as 1-D HPLC, 2-D LC, and narrow ranged 2-DE prior to MALDI-TOF and LC-MS/MS, were used to identify unique plasma proteins in this population. To compile candidates with high confidence, two different search engines were used to select proteins with a false discovery rate of less than or equal to 1%. From this rigorous selection process, we initially identified 494 distinct Korean plasma proteins. After multilevel stepwise filtrations with stringent, identification parameters were applied to acquire plasma protein list with the maximum confidence; a total 185 distinct plasma proteins were identified and integrated into our Korean human plasma proteome project database along with several bioinformatics analysis results, including gene ontology, biological pathways, tissue expression, and disease association. This is the first publicly available single ethnic group-specific plasma proteome database (http://proteomix.org/ khppp/).

Original languageEnglish
Pages (from-to)1250-1255
Number of pages6
JournalProteomics
Volume10
Issue number6
DOIs
Publication statusPublished - 2010 Mar 1

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Proteome
Information management
Blood Proteins
Plasma (human)
Plasmas
Databases
Search Engine
Gene Ontology
Matrix-Assisted Laser Desorption-Ionization Mass Spectrometry
Biomarkers
Bioinformatics
Search engines
Computational Biology
Ethnic Groups
Ontology
Identification (control systems)
Proteins
Genes
High Pressure Liquid Chromatography
Tissue Donors

All Science Journal Classification (ASJC) codes

  • Biochemistry
  • Molecular Biology

Cite this

Jeong, S. K., Lee, E. Y., Cho, J. Y., Lee, H. J., Jeong, A. S., Cho, S. Y., & Paik, Y-K. (2010). Data management and functional annotation of the Korean reference plasma proteome. Proteomics, 10(6), 1250-1255. https://doi.org/10.1002/pmic.200900371
Jeong, Seul Ki ; Lee, Eun Young ; Cho, Jin Young ; Lee, Hyoung Joo ; Jeong, An Sung ; Cho, Sang Yun ; Paik, Young-Ki. / Data management and functional annotation of the Korean reference plasma proteome. In: Proteomics. 2010 ; Vol. 10, No. 6. pp. 1250-1255.
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Jeong, SK, Lee, EY, Cho, JY, Lee, HJ, Jeong, AS, Cho, SY & Paik, Y-K 2010, 'Data management and functional annotation of the Korean reference plasma proteome', Proteomics, vol. 10, no. 6, pp. 1250-1255. https://doi.org/10.1002/pmic.200900371

Data management and functional annotation of the Korean reference plasma proteome. / Jeong, Seul Ki; Lee, Eun Young; Cho, Jin Young; Lee, Hyoung Joo; Jeong, An Sung; Cho, Sang Yun; Paik, Young-Ki.

In: Proteomics, Vol. 10, No. 6, 01.03.2010, p. 1250-1255.

Research output: Contribution to journalArticle

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Jeong SK, Lee EY, Cho JY, Lee HJ, Jeong AS, Cho SY et al. Data management and functional annotation of the Korean reference plasma proteome. Proteomics. 2010 Mar 1;10(6):1250-1255. https://doi.org/10.1002/pmic.200900371