Reannotation des Maize oligonucleotide arrays

High-density oligonucleotide arrays

We are attempting to produce high-density arrays of surface-bound oligonucleotides for hybridization experiments. Our approach is to mechanically miniamri~ conventional DNA synthesis chemistry. Ink-jet printer heads are used to deliver small drops of reagents to a chemically modified silicon dioxide surface, where they react to synthesize DNA. The drops are confined to small areas by a pattern ...

Contrast Normalization of Oligonucleotide Arrays

Affymetrix high-density oligonucleotide array is a tool that has the capacity to simultaneously measure the abundance of thousands of mRNA sequences in biological samples. In order to allow direct array-to-array comparisons, normalization is a necessity. When deciding on an appropriate normalization procedure there are a couple questions that need to be addressed, e.g., on which level should th...

2 Preprocessing High - density Oligonucleotide Arrays

High-density oligonucleotide expression arrays are a widely used microarray platform. Affymetrix GeneChip arrays dominate this market. An important distinction between the GeneChip and other technologies is that on GeneChips, multiple short probes are used to measure gene expression levels. This makes preprocessing particularly important when using this platform. This chapter begins by describi...

A Semiparametric Regression Model For Oligonucleotide Arrays

Probe selection for high-density oligonucleotide arrays.

High-density oligonucleotide microarrays enable simultaneous monitoring of expression levels of tens of thousands of transcripts. For accurate detection and quantitation of transcripts in the presence of cellular mRNA, it is essential to design microarrays whose oligonucleotide probes produce hybridization intensities that accurately reflect the concentration of original mRNA. We present a mode...