New Generation of DNA Microarrays and Gene Expression Bioinformatics

Andreas Rühlmann

Agilent Technologies

This seminar will review the Agilents Technologies Total Gene Expression Solution, which consists of:

• The Agilent 2100 Bioanalyzer Lab-on-a-Chip technology for unprecedented quality control of RNA samples. It enables highly improved RNA quality assessment, unknown to agarose gel techniques, during preparation of labeled RNA prior to loading onto valuable arrays.
• Oligonucleotide DNA Microarrays. Using trusted phosphoamidite chemistry Agilent can produce high quality and large quantities of 25 or 60mers oligonucleotide arrays. Our arrays are fully customizable, with fast design, print and delivery, to allow for analyses of alternative splicing and non-mainstream transcriptoms. Our feature layouts are 8400 or 25000 features per array allowing interrogation of up to 25000 genes per array.
• New cDNA Deposition Arrays providing unmatched economy and quality. Using minimal amounts of valuable cDNA, Agilent can print more features than anybody with standard volumes of valuable PCR samples. These arrays can include up to 32000 features per array.
• State-of-the-art next generation Scanner using automated feature extraction and dynamic autofocus for increased accuracy and throughput for unmatched quality.
• Next Generation Gene Expression Data Storage and Analysis with Rosetta Resolverä Bioinformatics - a new class of software with quality statistics and fully integrated single and dual color based DNA Microarray gene expression analysis.

The Agilent Technologies Total Gene Expression Solution leads users confidently into the new age of Gene Expression Analysis. More information can be found at http://www.agilent.com/dna and http://www.rii.com.

Selected reading:

• Expression profiling using microarrays fabricated by an ink-jet oligonucleotide synthesizer. Hughes et al., Nature Biotechnology 19, 342-347 (2001).
• Experimental annotation of the human genome using Microarray technology. Shoemaker et al., Nature 409, 922-927 (2001).
• Functional Discovery via a Compendium of Expression Profiles. Hughes et al., Cell 102, 109-126 (2000).
• Widespread aneuploidy revealed by DNA microarray expression profiling. Hughes et al., Nature Genetics 25, 333-337 (2000).
• Signaling and Circuitry of Multiple MAPK Pathways Revealed by a Matrix of Global Gene Expression Profiles. Roberts et al., Science 287, 873-880 (2000).