PAG-X  Plant, Animal & Microbe Genomes X Conference

January 12-16, 2002
Town & Country Convention Center
San Diego, CA

Bioinformatics: Databases
             

DEVELOPMENT OF A DATABASE FOR THE FUNCTIONAL AND EXPRESSION ANNOTATION OF SEQUENCE TAGS (FEAST) IN THE PIG.

Diane Moody1 , Walid Aref2 , Rebecca Doerge3 , Lauren McIntyre4 , Mohammed Mokbel2 , Aneta Valova5 , Christopher Bidwell1

1 Department of Animal Science, Purdue University, West Lafayette, IN 47907
2 Department of Computer Science, Purdue University, West Lafayette, IN 47907
3 Departments of Agronomy and Statistics, Purdue University, West Lafayette, IN 47907
4 Department of Agronomy, Purdue University, West Lafayette, IN 47907
5 Department of Statistics, Purdue University, West Lafayette, IN 47907

As resources such as cDNA libraries and EST sequences become increasingly available for domestic animals, databases are needed to archive and integrate datasets from functional genomics experiments. We have initiated the development of a database for the functional and expression annotation of sequence tags (FEAST) in the pig. Our current efforts are focused on developing an object-relational database for the storage, management, and query of gene expression data. This segment of the FEAST database is designed to maintain raw data from microarray and serial analysis of gene expression (SAGE) experiments, as well as data describing the experimental design, treatments, methods, and quality controls. Our database will facilitate access to, and query of information across many experiments and models, and permit the re-examination of raw data as analysis tools improve. Although our current efforts are focused on the pig, the database is designed to accept gene expression data from multiple species. Resources to define datasets and export data to analysis programs will be available to users of the database, and links will be made to public tools for the analysis of gene expression data. Links will also be created among sequences represented in the microarray or SAGE experiments, and public and private resources that maintain information such as sequences, functional annotations, and map locations of genes. Ultimately, the FEAST database will provide a global view of genes that act together to influence a specific trait.

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