An integrated proteome database for two-dimensional electrophoresis data analysis and laboratory information management system

Sang Yun Cho, Kang Sik Park, Jung Eun Shim, Min Seok Kwon, Kil Hong Joo, Won Suk Lee, Joon Chang, Hoguen Kim, Hyun Cheol Chung, Hyun Ok Kim, Young Ki Paik

Research output: Contribution to journalArticle

30 Citations (Scopus)

Abstract

We describe an integrated proteome database, termed Yonsei Proteome Research Center Proteome Database (YPRC-PDB) which can store, retrieve and analyze various information including two-dimensional electrophoresis (2-DE) images and associated spot information that were obtained during studies of hepatocellular carcinoma (HCC). YPRC-PDB is also designed to perform as a laboratory information management system that manages sample information, clinical background, conditions of both sample preparation and 2-DE, and entire sets of experimental results. It also features query system and data-mining applications, which are amenable to automatically analyze expression level changes of a specific protein and directly link to clinical information. The user interface is web-based, so that the results from other laboratories can be shared effectively. In particular, the master gel image query is equipped with a graphic tool that can easily identify the relationship between the specific pathological stage of HCC and expression levels of a potential marker protein on the master gel image. Thus, YPRC-PDB is a versatile integrated database suitable for subsequent analyses. The information in YPRC-PDB is updated easily and it is available to authorized users on the World Wide Web (http://yprcpdb.proteomix.org/~damduck/).

Original languageEnglish
Pages (from-to)1104-1113
Number of pages10
JournalProteomics
Volume2
Issue number9
DOIs
Publication statusPublished - 2002 Sep 1

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Clinical Laboratory Information Systems
Information Management
Proteome
Electrophoresis
Information management
Databases
Research
Hepatocellular Carcinoma
Gels
Data Mining
World Wide Web
Internet
User interfaces
Telecommunication links
Data mining
Proteins

All Science Journal Classification (ASJC) codes

  • Biochemistry
  • Molecular Biology

Cite this

Cho, Sang Yun ; Park, Kang Sik ; Shim, Jung Eun ; Kwon, Min Seok ; Joo, Kil Hong ; Lee, Won Suk ; Chang, Joon ; Kim, Hoguen ; Chung, Hyun Cheol ; Kim, Hyun Ok ; Paik, Young Ki. / An integrated proteome database for two-dimensional electrophoresis data analysis and laboratory information management system. In: Proteomics. 2002 ; Vol. 2, No. 9. pp. 1104-1113.
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An integrated proteome database for two-dimensional electrophoresis data analysis and laboratory information management system. / Cho, Sang Yun; Park, Kang Sik; Shim, Jung Eun; Kwon, Min Seok; Joo, Kil Hong; Lee, Won Suk; Chang, Joon; Kim, Hoguen; Chung, Hyun Cheol; Kim, Hyun Ok; Paik, Young Ki.

In: Proteomics, Vol. 2, No. 9, 01.09.2002, p. 1104-1113.

Research output: Contribution to journalArticle

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