Quantitative oligonucleotide microarray data analysis with an artificial standard probe strategy.
Quantitative data analysis is an important element in several applications of DNA microarray, including mRNA expression profiling and estimation of infectious doses for pathogens. Here, we introduce an artificial standard probe strategy for quantitative pathogen detection using an oligonucleotide chip as a model system. The standard capture probe sequence was artificially designed to prevent non-specific hybridization with bacterial targets. Based on the fluorescence intensities of artificial standard spots, the raw fluorescence intensity data for specific spots could be corrected to generate linear correlations with target concentrations. Therefore, our novel artificial standard probe may be effectively applied for the correction of chip-to-chip variations and quantitative data analysis of a one-color labeled DNA microarray system.
Hwang
Byeong Hee
BH
Department of Chemical Engineering, Pohang University of Science and Technology, Pohang 790-784, Republic of Korea.
Cha
Hyung Joon
HJ
D000465:Algorithms; D015342:DNA Probes / Q000235:genetics*; D007723:Korea; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods* / Q000592:standards*; D012016:Reference Values; D017422:Sequence Analysis, DNA / Q000379:methods*
D015342:DNA Probes