Comparison of oligonucleotide-microarray and serial analysis of gene expression (SAGE) in transcript profiling analysis of megakaryocytes derived from CD34+ cells
Experimental & Molecular Medicine
;
: 460-466, 2003.
Article
in English
| WPRIM
| ID: wpr-171353
ABSTRACT
For the comprehensive analysis of transcript expression, the array-based hybridization analysis and the serial analysis of gene expression (SAGE) are commonly used platforms. The SAGE is based on a high-throughput sequencing of ditags derived from the transcript. DNA microarrays are a powerful tool for monitoring thousands of transcripts simultaneously, whereas the Genechip (Affimatrix microarray) technology is based on the hybridization of a single probe or other manufacturer's microarrays (cDNA- or oligonucleotide-microarray) procedures include the competitive hybridization of two probes. In this study, the quantitative accuracy of expression using oligonucleotide-microarray was determined by comparing data set from the SAGE. In previous study the microSAGE was performed for the megakaryocytes and non- megakaryocytes derived from human cord blood CD34(+)cells by ex vivo expansion using thrombopoietin, and a total of 38,909 tags representing 8,976 unique genes were obtained. On the identical RNA, expression profiling was also carried out using oligonucleotide-microarray (MAGIC II 10K chip, Macrogen). The most frequently expressed genes in human megakaryocytes were identified as platelet factor 1 followed by annexin A1, ribosomal protein S23. The majority of the 50 most highly expressed genes in the CD34(+)-derived megakaryocytes were those involved in protein synthesis, e.g., ribosomal proteins. The expression level through the single channel of oligonucleotide-microarray and SAGE have a fairly good correlation in terms of absolute analyses and that the correlation is higher for the genes with higher expression levels.
Full text:
Available
Index:
WPRIM (Western Pacific)
Main subject:
Transcription, Genetic
/
RNA, Messenger
/
Megakaryocytes
/
Comparative Study
/
Reproducibility of Results
/
Antigens, CD34
/
Oligonucleotide Array Sequence Analysis
/
Gene Expression Profiling
/
Fetal Blood
Type of study:
Prognostic study
Limits:
Humans
Language:
English
Journal:
Experimental & Molecular Medicine
Year:
2003
Type:
Article
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