Physiol. Genomics AJP: Gastrointestinal and Liver Physiology
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Physiol. Genomics 23: 246-256, 2005. First published August 16, 2005; doi:10.1152/physiolgenomics.00040.2005 Free Article
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Received 18 February 2005; accepted in final form 8 August 2005.
Physiological Genomics 23:246-256 (2005)
American Physiological Society © 2005 American Physiological Society

Toolbox

Tools and strategies for physiological genomics: the Rat Genome Database

Simon N. Twigger 1,2, Dean Pasko 1, Jeff Nie 1, Mary Shimoyama 1, Susan Bromberg 1, Dan Campbell 1, Jiali Chen 1, Norberto dela Cruz 1, Chunyu Fan 1, Cindy Foote 1, Glenn Harris 1, Brian Hickmann 1, Yuan Ji 1, Weihong Jin 1, Dawei Li 1, Jedidiah Mathis 1, Nataliya Nenasheva 1, Rajni Nigam 1, Victoria Petri 1, Dorothy Reilly 1, Victor Ruotti 1, Eric Schauberger 1, Kathy Seiler 1, Ronit Slyper 1, Jennifer Smith 1, Weiye Wang 1, Wenhua Wu 1, Lan Zhao 1, Angela Zuniga-Meyer 1, Peter J. Tonellato 1,2, Anne E. Kwitek 1,2 and Howard J. Jacob 1,2,3

1 Human and Molecular Genetics Center, Medical College of Wisconsin, Milwaukee, Wisconsin 2 Department of Physiology, Medical College of Wisconsin, Milwaukee, Wisconsin 3 Department of Pediatrics, Medical College of Wisconsin, Milwaukee, Wisconsin

The broad goal of physiological genomics research is to link genes to their functions using appropriate experimental and computational techniques. Modern genomics experiments enable the generation of vast quantities of data, and interpretation of this data requires the integration of information derived from many diverse sources. Computational biology and bioinformatics offer the ability to manage and channel this information torrent. The Rat Genome Database (RGD; http://rgd.mcw.edu) has developed computational tools and strategies specifically supporting the goal of linking genes to their functional roles in rat and, using comparative genomics, to human and mouse. We present an overview of the database with a focus on these unique computational tools and describe strategies for the use of these resources in the area of physiological genomics.

ontologies; comparative genomics; model organism; bioinformatics; physiological genomics




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