INTRODUCTION DNA microarrays are one of a few technologies that enable the monitoring of thousands of gene expression levels in parallel. In general, microarrays comprise a solid planar substrate on which an ordered array of probes has been deposited. Each probe represents a gene or transcript of interest and there are essentially three main types of probe: polymerase chain reaction (PCR) produ...

Oligonucleotide microarrays are used to analyze target sequences on the basis of differences in hybridization stability between matched and mismatched probe-target duplexes. DNA microarray manufacture via photolithographic synthesis generates a minority of full-length oligonucleotide probes along with a series of 5'-truncated contaminants. In a model experiment, we now investigate the effect of...

Breakthrough advances in chemistry and biology over the last two decades have vastly expanded the repertoire of nucleic acid structure and function with potential application in multiple areas of science and technology, including sensing and analytical applications. DNA oligonucleotides represent popular tools for the development of sensing platforms due to their low cost, rich structural polym...

Gene expression analysis by means of high-density-oligonucleotide-array chips is based on the sequence specific binding of mRNA to oligonucleotide probes and its measurement using fluorescence labels. The sensitivity of a probe to detect a certain amount of target mRNA considerably varies among the about 400.000 probes, which are covalently attached to a typical Affymetrix chip. We present a mo...

We report the development of a self-contained (homogeneous), single-tube assay for the genotyping of single-nucleotide polymorphisms (SNPs), which does not rely on fluorescent oligonucleotide probes. The method, which we call Tm-shift genotyping, combines allele-specific PCR with the discrimination between amplification products by their melting temperatures (Tm). Two distinct forward primers, ...

INTRODUCTION DNA microarrays are one of a few technologies that enable the monitoring of thousands of gene expression levels in parallel. In general, microarrays comprise a solid planar substrate on which an ordered array of probes has been deposited. Each probe represents a gene or transcript of interest and there are essentially three main types of probe: polymerase chain reaction (PCR) produ...

Agilent Technologies manufactures probes for microarrays using a proprietary DNA synthesis method based upon inkjet printing technology. The method, in which layers of DNA nucleotides are “printed” onto desired microarray feature locations to synthesize probes, circumvents many of the limitations of light-based synthesis methods, and is capable of producing oligonucleotide probes of unprecedent...

Agilent Technologies manufactures probes for microarrays using a proprietary DNA synthesis method based upon inkjet printing technology. The method, in which layers of DNA nucleotides are “printed” onto desired microarray feature locations to synthesize probes, circumvents many of the limitations of light-based synthesis methods, and is capable of producing oligonucleotide probes of unprecedent...

Oligonucleotides find several numbers of applications: as diagnostic probes, RT and PCR primers and antisense agents due to their ability of forming specific interactions with complementary nucleotide sequences within nucleic acids. These interactions are strongly affected by accessibility of the target sequence in the RNA structure. In the present work the mechanism of invasion of RNA structur...

DNA microarray technology is a powerful tool for getting an overview of gene expression in biological samples. Although the successful use of microarray-based expression analysis was demonstrated in a number of applications, the main problem with this approach is the fact that expression levels deduced from hybridization experiments do not necessarily correlate with RNA concentrations. Moreover...