Document Detail


Toward a comprehensive quantitative proteome database: protein expression map of lymphoid neoplasms by 2-D DIGE and MS.
MedLine Citation:
PMID:  16888764     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
Using 2-D DIGE, we constructed a quantitative 2-D database including 309 proteins corresponding to 389 protein spots across 42 lymphoid neoplasm cell lines. The proteins separated by 2-D PAGE were identified by MS and assigned to the expression data obtained by 2-D DIGE. The cell lines were categorized into four groups: those from Hodgkin's lymphoma (HL) (4 cell lines), B cell malignancies (19 cell lines), T cell malignancies (16 cell lines), and natural killer (NK) cell malignancies (3 cell lines). We characterized the proteins in the database by classifying them according to their expression level. We found 28 proteins with more than a 2-fold difference between the cell line groups. We also noted the proteins that allowed multidimensional separation to be achieved (1) between HL cells and other cells, (2) between the cells derived from B cells, T cells and NK cells, and (3) between HL cells and anaplastic large cell lymphoma cells. Decision tree classification identified five proteins that could be used to classify the 42 cell lines according to differentiation. These results suggest that the quantitative 2-D database using 2-D DIGE will be a useful resource for studying the mechanisms underlying the differentiation phenotypes of lymphoid neoplasms.
Authors:
Kazuyasu Fujii; Tadashi Kondo; Masayo Yamada; Keiji Iwatsuki; Setsuo Hirohashi
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Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't    
Journal Detail:
Title:  Proteomics     Volume:  6     ISSN:  1615-9853     ISO Abbreviation:  Proteomics     Publication Date:  2006 Sep 
Date Detail:
Created Date:  2006-09-04     Completed Date:  2006-10-26     Revised Date:  2006-11-15    
Medline Journal Info:
Nlm Unique ID:  101092707     Medline TA:  Proteomics     Country:  Germany    
Other Details:
Languages:  eng     Pagination:  4856-76     Citation Subset:  IM    
Affiliation:
Proteome Bioinformatics Project, National Cancer Center Research Institute, Tokyo, Japan.
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MeSH Terms
Descriptor/Qualifier:
Algorithms
Amino Acid Sequence
Cell Line, Tumor
Computational Biology
Databases, Protein*
Electrophoresis, Gel, Two-Dimensional
Humans
Lymphoma / chemistry,  metabolism*
Mass Spectrometry
Molecular Sequence Data
Proliferating Cell Nuclear Antigen / chemistry
Proteome / analysis*,  chemistry,  metabolism
Chemical
Reg. No./Substance:
0/Proliferating Cell Nuclear Antigen; 0/Proteome

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine


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