Microarray results improve significantly as hybridization approaches equilibrium

Microarray results improve significantly as hybridization approaches equilibrium.

Dual-channel long oligonucleotide microarrays are in widespread use. Although much attention has been given to proper experimental design and analysis regarding long oligonucleotide microarrays, relatively little information is available concerning the optimization of protocols. We carried out a series of microarray experiments designed to investigate the effects of different levels of target c...

Utilizing microarray spot characteristics to improve cross-species hybridization results.

Cross-species hybridization (CSH), i.e., the hybridization of a (target) species RNA to a DNA microarray that represents another (reference) species, is often used to study species diversity. However, filtration of CSH data has to be applied to extract valid information. We present a novel approach to filtering the CSH data, which utilizes spot characteristics (SCs) of image-quantification data...

Thermodynamics of Microarray Hybridization

Some Results on Equilibrium Distributions

‎The equilibrium distributions have many applications in reliability theory, stochastic orderings and random processes. ‎The purpose of this paper is to introduce the equilibrium distributions and presents some results related to this issue. Some results are based on order statistics. ‎In this paper, ‎the generalized Pareto distributions are also analyzed and some basic relationships between t...

Application of Equilibrium Models of Solution Hybridization to Microarray Design and Analysis

BACKGROUND The probe percent bound value, calculated using multi-state equilibrium models of solution hybridization, is shown to be useful in understanding the hybridization behavior of microarray probes having 50 nucleotides, with and without mismatches. These longer oligonucleotides are in widespread use on microarrays, but there are few controlled studies of their interactions with mismatche...