Kinetics of multiplex hybridization: mechanisms and implications.
Quantitative analysis of DNA microarray data is complicated by uncertainties inherent to the experimental setup. Using computer simulations and real-time experimental results, we have previously demonstrated effects of multiplex reactions on a single sensing zone of an array, which may be a leading factor in erroneous interpretation of experimental data. We suggest here that a simplified three-component kinetic model may present a sufficient approximation to describe the general case of DNA sensing in a complex sample milieu. We show that, by analyzing the real-time hybridization kinetics of a nontarget species, we can perform quantitative analysis of unlabeled targets of interest within a broad dynamic range of concentrations.
Bishop
J
J
Electrical and Computer Engineering, University of Utah, Salt Lake City, Utah, USA.
Chagovetz
A M
AM
Blair
S
S
D000465:Algorithms; D004247:DNA / Q000737:chemistry*; D020869:Gene Expression Profiling / Q000379:methods*; D007700:Kinetics; D009693:Nucleic Acid Hybridization / Q000379:methods*; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D015203:Reproducibility of Results; D012680:Sensitivity and Specificity
D004247:DNA