International Mammalian Genome Society

17th International Mouse Genome Conference

9-12 November 2003, Braunschweig, Germany


ORAL PRESENTATION

MONDAY 10 NOVEMBER
11:15 – 11:30 HRS

TOWARD A WHOLE-GENOME MOUSE EXPRESSION MICROARRAY: USING THE NIA MOUSE GENE INDEX TO EXPAND THE NIA MOUSE DEVELOPMENT AND NIEHS TOXICOGENOMICS MICROARRAY PLATFORMS

Carter M G
National Institute on Aging

Co-Authors: Sharov A A, Dudekula D B, VanBuren V, Qian Y, Ko, M S H
Institutions: National Institute on Aging

For global gene expression studies, a microarray platform containing all known transcripts expressed in the mouse – in all tissues, developmental stages, and disease states – is an important resource which has yet to be fully achieved. Previously, we developed an in situ-synthesized 60-mer oligonucleotide microarray platform (Mouse Development Microarray) containing 22,000 probes for transcripts isolated by the NIA Mouse cDNA project as cDNA clones, primarily from early developmental stages and cultured stem cells (Carter et al., Genome Res. 2003). The NIEHS Toxicogenomics Research Consortium has used the same technology to develop a 21,000 probe microarray platform focused on a curated list of toxicology-related transcripts.

To approach the goal of a mouse whole-genome expression microarray, we are currently developing an expanded microarray platform based on the NIA Mouse Gene Index, a set of almost 30,000 gene/transcript models which integrates NIA Mouse cDNA sequences, full-length Riken Fantom cDNA sequences, curated RefSeq entries, and ENSEMBL transcripts with the complete mouse genome sequence to create a comprehensive set of unique genes. By minimizing the probe set overlap between the expanded Mouse Development Microarray and the Toxicogenomics Microarray, expression of transcripts from over 30,000 unique genes can be assayed by using the two arrays together. The gene content and application of this whole-genome mouse array will be presented.


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