International Mammalian Genome Society

17th International Mouse Genome Conference

9-12 November 2003, Braunschweig, Germany


POSTER 147 - PLANS FOR INTEGRATING MICROARRAY DATA IN MGI

Richardson J E
The Jackson Laboratory

Co-Authors: Blake J A, Bult CJ, Kadin J A, Eppig JT, Ringwald M, and the Mouse Genome Informatics Group
Institutions: The Jackson Laboratory

The Mouse Genome Informatics (MGI) group maintains a comprehensive database of integrated information regarding the laboratory mouse. Compared to simple data warehousing, integration supports more powerful querying between data sets and across data types. MGI integrates data from strains and sequences through phenotypes and annotations, from data sets large and small.

One of MGI's focus areas is gene expression data, funded through the GXD project. To date, GXD has concentrated on curating data from “traditional” assays, such as Northern blots, RNA in-situ hybridization, and Immunohistochemistry. Via common genes, strains, etc, these data are integrated with the rest of MGI. As of July 2003, MGI held nearly 9000 expression assays for over 2600 genes.

We have been working on adding microarray data to MGI. As with any new data type, our first concern is how best to integrate it with the rest of the database, to provide users with added value. However, microarray data are both extraordinarily complex and large-scale, and the technology continues to evolve. The options and concomitant issues are many and intertwined.

This presentation is a status report on analysis and plans for handling microarray data in MGI. The plan highlights include: integrating the data at a high level while maintaining ‘pointers' to the actual data; acquiring and processing the data in a way that combines curator oversight with high volume; and offering Web-based access that exploits the integration with mapping, sequence, and other data.

URL: http://www.informatics.jax.org.

MGI support comes from NIH grants HG00330, HD33745 and HG02273


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